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| + | {{Team:Amsterdam/toolStyleBase}} |
| + | {{Team:Amsterdam/toolStyleSunburst}} |
| + | {{Team:Amsterdam/stylesheet}} |
| + | {{Team:Amsterdam/scripts}} |
| + | {{Team:Amsterdam/Header}} |
| + | {{Team:Amsterdam/Sidebar2}} |
| <html> | | <html> |
- | <head>
| + | <script type='text/javascript' src='/Team:Amsterdam/maarten/slides.min.jquery.js?action=raw'></script> |
- | <script src="//ajax.googleapis.com/ajax/libs/jquery/1.8.0/jquery.min.js"></script>
| + | |
- | <script type='text/javascript'> | + | |
- | | + | |
- | (function() {
| + | |
- | var ua = navigator.userAgent,
| + | |
- | iStuff = ua.match(/iPhone/i) || ua.match(/iPad/i),
| + | |
- | typeOfCanvas = typeof HTMLCanvasElement,
| + | |
- | nativeCanvasSupport = (typeOfCanvas == 'object' || typeOfCanvas == 'function'),
| + | |
- | textSupport = nativeCanvasSupport
| + | |
- | && (typeof document.createElement('canvas').getContext('2d').fillText == 'function');
| + | |
- | //I'm setting this based on the fact that ExCanvas provides text support for IE
| + | |
- | //and that as of today iPhone/iPad current text support is lame
| + | |
- | labelType = (!nativeCanvasSupport || (textSupport && !iStuff))? 'Native' : 'HTML';
| + | |
- | nativeTextSupport = labelType == 'Native';
| + | |
- | useGradients = nativeCanvasSupport;
| + | |
- | animate = !(iStuff || !nativeCanvasSupport);
| + | |
- | })();
| + | |
- | | + | |
- | var Log = {
| + | |
- | elem: false,
| + | |
- | write: function(text){
| + | |
- | if (!this.elem)
| + | |
- | this.elem = document.getElementById('log');
| + | |
- | this.elem.innerHTML = text;
| + | |
- | this.elem.style.left = (500 - this.elem.offsetWidth / 2) + 'px';
| + | |
- | }
| + | |
- | };
| + | |
- | | + | |
- | function visualization(number){
| + | |
- | $('#infovis').empty()
| + | |
- | json = JSON.parse(unescape($(':input[name=json'+number+']').val()))
| + | |
- | //init data
| + | |
- | //init Sunburst
| + | |
- | var sb = new $jit.Sunburst({
| + | |
- | //id container for the visualization
| + | |
- | injectInto: 'infovis',
| + | |
- | //Distance between levels
| + | |
- | levelDistance: 90,
| + | |
- | //Change node and edge styles such as
| + | |
- | //color, width and dimensions.
| + | |
- | Node: {
| + | |
- | overridable: true,
| + | |
- | type: useGradients? 'gradient-multipie' : 'multipie'
| + | |
- | },
| + | |
- | //Select canvas labels
| + | |
- | //'HTML', 'SVG' and 'Native' are possible options
| + | |
- | Label: {
| + | |
- | type: labelType
| + | |
- | },
| + | |
- | //Change styles when hovering and clicking nodes
| + | |
- | NodeStyles: {
| + | |
- | enable: true,
| + | |
- | type: 'Native',
| + | |
- | stylesClick: {
| + | |
- | 'color': '#000000'
| + | |
- | },
| + | |
- | },
| + | |
- | //Add tooltips
| + | |
- | Tips: {
| + | |
- | enable: true,
| + | |
- | onShow: function(tip, node) {
| + | |
- | var html = "<div class=\"tip-title\">" + node.data.description + "</div>";
| + | |
- | var data = node.data;
| + | |
- | if("length" in data) {
| + | |
- | html += "<b>Length of feature:</b> " + data.length + "bp";
| + | |
- | }
| + | |
- | if("type" in data){
| + | |
- | html += "<br\><b>Type of feature:</b> " + data.type;
| + | |
- | }
| + | |
- | tip.innerHTML = html;
| + | |
- | }
| + | |
- | },
| + | |
- | //implement event handlers
| + | |
- | Events: {
| + | |
- | enable: true,
| + | |
- | onClick: function(node) {
| + | |
- | if(!node) return;
| + | |
- | //Build detailed information about the file/folder
| + | |
- | //and place it in the right column.
| + | |
- | var html = "<h4>" + node.name + "</h4>", data = node.data;
| + | |
- | if("dna" in data) {
| + | |
- | html += "<br /><br /><b>Sequence:</b><br /><pre>" + data.dna + "</pre>";
| + | |
- | }
| + | |
- | $jit.id('inner-details').innerHTML = html;
| + | |
- | //hide tip
| + | |
- | sb.tips.hide();
| + | |
- | //rotate
| + | |
- | //sb.rotate(node, animate? 'animate' : 'replot', {
| + | |
- | //duration: 1000,
| + | |
- | //transition: $jit.Trans.Quart.easeInOut
| + | |
- | //});
| + | |
- | }
| + | |
- | },
| + | |
- | // Only used when Label type is 'HTML' or 'SVG'
| + | |
- | // Add text to the labels.
| + | |
- | // This method is only triggered on label creation
| + | |
- | onCreateLabel: function(domElement, node){
| + | |
- | var labels = sb.config.Label.type,
| + | |
- | aw = node.getData('length');
| + | |
- | if (labels === 'HTML' && (node._depth < 2 || aw > 2000)) {
| + | |
- | domElement.innerHTML = node.name;
| + | |
- | } else if (labels === 'SVG' && (node._depth < 2 || aw > 2000)) {
| + | |
- | domElement.firstChild.appendChild(document.createTextNode(node.name));
| + | |
- | }
| + | |
- | },
| + | |
- | // Only used when Label type is 'HTML' or 'SVG'
| + | |
- | // Change node styles when labels are placed
| + | |
- | // or moved.
| + | |
- | onPlaceLabel: function(domElement, node){
| + | |
- | var labels = sb.config.Label.type;
| + | |
- | if (labels === 'SVG') {
| + | |
- | var fch = domElement.firstChild;
| + | |
- | var style = fch.style;
| + | |
- | style.display = '';
| + | |
- | style.cursor = 'pointer';
| + | |
- | style.fontSize = "0.8em";
| + | |
- | fch.setAttribute('fill', "#fff");
| + | |
- | } else if (labels === 'HTML') {
| + | |
- | var style = domElement.style;
| + | |
- | style.display = '';
| + | |
- | style.cursor = 'pointer';
| + | |
- | style.fontSize = "0.8em";
| + | |
- | style.color = "#ddd";
| + | |
- | var left = parseInt(style.left);
| + | |
- | var w = domElement.offsetWidth;
| + | |
- | style.left = (left - w / 2) + 'px';
| + | |
- | }
| + | |
- | }
| + | |
- | });
| + | |
- | //load JSON data.
| + | |
- | sb.loadJSON(json);
| + | |
- | //compute positions and plot.
| + | |
- | sb.refresh();
| + | |
- |
| + | |
- | //end
| + | |
- | }
| + | |
- | | + | |
- | function addForbiddenSequences(){
| + | |
- | forbiddenSequences.addSite('Forbidden-EcoRI','GAATTC')
| + | |
- | forbiddenSequences.addSite('Forbidden-XbaI','GAATTC')
| + | |
- | forbiddenSequences.addSite('Forbidden-SpeI','ACTAGT')
| + | |
- | forbiddenSequences.addSite('Forbidden-PstI','CTGCAG')
| + | |
- | forbiddenSequences.addSite('Forbidden-NotI','GCGGCCGC')
| + | |
- | }
| + | |
- | | + | |
- | var forbiddenSequences = {
| + | |
- | forbiddenSequencesArray : {},
| + | |
- | addSite : function(name,sequence){
| + | |
- | forbiddenSequences.forbiddenSequencesArray[name] = sequence
| + | |
- | },
| + | |
- | }
| + | |
- | | + | |
- | function checkOccurrence(target,sequence){
| + | |
- | if (sequence.length > target.length){
| + | |
- | if (sequence.indexOf(target) == -1){
| + | |
- | return false
| + | |
- | } else{
| + | |
- | return true
| + | |
- | }
| + | |
- | } else{
| + | |
- | if (target.indexOf(sequence) == -1){
| + | |
- | return false
| + | |
- | } else{
| + | |
- | return true
| + | |
- | }
| + | |
- | }
| + | |
- | }
| + | |
- | | + | |
- | function randomDNA(length){
| + | |
- | chars = 'atgc'
| + | |
- | inForbiddenSite = true
| + | |
- | while (inForbiddenSite === true){
| + | |
- | sequence = ''
| + | |
- | inForbiddenSite = false
| + | |
- | for (k=0; k<length; k++) {
| + | |
- | rnum = Math.floor(Math.random() * chars.length);
| + | |
- | sequence += chars.substring(rnum,rnum+1);
| + | |
- | }
| + | |
- | for (item in forbiddenSequences.forbiddenSequencesArray){
| + | |
- | if (checkOccurrence(sequence,forbiddenSequences.forbiddenSequencesArray[item].toLowerCase()) === false){
| + | |
- | continue
| + | |
- | } else{
| + | |
- | inForbiddenSite = true
| + | |
- | break
| + | |
- | }
| + | |
- | }
| + | |
- | }
| + | |
- | return sequence
| + | |
- | }
| + | |
- | | + | |
- | function getMethyltransferases(){
| + | |
- | methyltransferases = new Array()
| + | |
- | sca1 = new Object()
| + | |
- | sca1.target = "AGTACT"
| + | |
- | sca1.sequence = "tccgggcgggactttggatatgtgatacagtcgtccgctgcactatggaatcgactctctacattctcacagagaggaaaagccttggacaccaggcttgcagacatcaagaaggccctggggaagccgtactacgaaacctcggatgtccttctttaccacggcgacagtcttgagctgctcaagtcaatgcctcagcagattttcgaccttaccgtaactagcccaccttacaatattggcaaagagtacgagggtgtactgtcgatcgaggaatacatttcctggtgcgagacatggatgtcgcgcgttcatagggcgaccagcgcaggcggcgcattttggctcaatgttgggtacgtccctgtcccgaaccaaggaaaagcagtcccgattccttacctcttgtgggacaagagtccgttctacatgatccaggaagttgtctggaattacggggcgggagtggcgtctcgaaaatcgttttccccgcgcaatgaaaagtttctctggtatgtgcgcgacccgctgaattattacttcgacctcgattcggtgcgcgacccaaatgtgaaataccccaaccagaaaaagaatgggaagctcaaatgcaacccgttggggaaaaatcccactgacgtttggcagttccccaaggttacgtcgggcgcgaagagatcaagcgtggagcgcaccgcccatccggcacaattcccgtctgctgtcattgaacgggtcatcaaggcgtgcagcccttccgacggcgtcatcctggacccattcctcggttccggaacgacctcgctgaccgccagaaagcaaggccggtgcagcgtcggtatcgaaatccgcgaagactacctcgacatcgcggtgggacgcctggaggcggaggcgcaatccctcttctag"
| + | |
- | sca1.description = "M.Sca1"
| + | |
- | sca2 = new Object()
| + | |
- | sca2.target = "AGTACC"
| + | |
- | sca2.sequence = "tccgggcgggactttggatatgtgatacagtcgtccgctgcactatggaatcgactctctacattctcacagagaggaaaagccttggacaccaggcttgcagacatcaagaaggccctggggaagccgtactacgaaacctcggatgtccttctttaccacggcgacagtcttgagctgctcaagtcaatgcctcagcagattttcgaccttaccgtaactagcccaccttacaatattggcaaagagtacgagggtgtactgtcgatcgaggaatacatttcctggtgcgagacatggatgtcgcgcgttcatagggcgaccagcgcaggcggcgcattttggctcaatgttgggtacgtccctgtcccgaaccaaggaaaagcagtcccgattccttacctcttgtgggacaagagtccgttctacatgatccaggaagttgtctggaattacggggcgggagtggcgtctcgaaaatcgttttccccgcgcaatgaaaagtttctctggtatgtgcgcgacccgctgaattattacttcgacctcgattcggtgcgcgacccaaatgtgaaataccccaaccagaaaaagaatgggaagctcaaatgcaacccgttggggaaaaatcccactgacgtttggcagttccccaaggttacgtcgggcgcgaagagatcaagcgtggagcgcaccgcccatccggcacaattcccgtctgctgtcattgaacgggtcatcaaggcgtgcagcccttccgacggcgtcatcctggacccattcctcggttccggaacgacctcgctgaccgccagaaagcaaggccggtgcagcgtcggtatcgaaatccgcgaagactacctcgacatcgcggtgggacgcctggaggcggaggcgcaatccctcttctagg"
| + | |
- | sca2.description = "M.Sca2"
| + | |
- | methyltransferases[0] = sca1
| + | |
- | methyltransferases[1] = sca2
| + | |
- | addForbiddenSequence(methyltransferases,'hasTarget')
| + | |
- | return methyltransferases
| + | |
- | }
| + | |
- | | + | |
- | function getZincFingers(){
| + | |
- | zincFingers = new Array()
| + | |
- | rawData = document.plasmidForm.zf.value
| + | |
- | rawData = rawData.split('>')
| + | |
- | rawData.reverse().pop()
| + | |
- | rawData.reverse()
| + | |
- | for (zf in rawData){
| + | |
- | zfFormatted = rawData[zf].split('\n')
| + | |
- | zfDescription = zfFormatted[0]
| + | |
- | zfTarget = zfDescription.split('|')[5]
| + | |
- | zfSequence = ''
| + | |
- | for (i=1;i<zfFormatted.length;i++){
| + | |
- | zfSequence+=zfFormatted[i]
| + | |
- | }
| + | |
- | zfObject = new Object()
| + | |
- | zfObject.target = zfTarget
| + | |
- | zfObject.sequence = zfSequence
| + | |
- | zfObject.description = zfDescription
| + | |
- | zincFingers[zf] = zfObject
| + | |
- | }
| + | |
- | addForbiddenSequence(zincFingers,'hasTarget')
| + | |
- | return zincFingers
| + | |
- | }
| + | |
- | | + | |
- | function getLinkers(){
| + | |
- | linkers = new Array()
| + | |
- | linker1 = new Object()
| + | |
- | linker1.sequence = "gcacccggc"
| + | |
- | linker1.description = "Linker 1"
| + | |
- | linker2 = new Object()
| + | |
- | linker2.sequence = "gcaccccgccc"
| + | |
- | linker2.description = "Linker 2"
| + | |
- | linkers[0] = linker1
| + | |
- | linkers[1] = linker2
| + | |
- | addForbiddenSequence(linkers,'noTarget')
| + | |
- | return linkers
| + | |
- | }
| + | |
- | | + | |
- | function getMycTags(){
| + | |
- | mycTags = new Array()
| + | |
- | mycTag1 = new Object()
| + | |
- | mycTag1.sequence = "gaacagaaactcatctctgaagaggatctg"
| + | |
- | mycTag1.description = "Myc Tag 1"
| + | |
- | mycTag2 = new Object()
| + | |
- | mycTag2.sequence = "gaacagaaactcatctctgaagagaatctgaagactgagtcagt"
| + | |
- | mycTag2.description = "Myc Tag 2"
| + | |
- | mycTags[0] = mycTag1
| + | |
- | mycTags[1] = mycTag2
| + | |
- | addForbiddenSequence(mycTags,'noTarget')
| + | |
- | return mycTags
| + | |
- | }
| + | |
- | | + | |
- | function getTerminators(){
| + | |
- | terminators = new Array()
| + | |
- | terminator1 = new Object()
| + | |
- | terminator1.sequence = "tcacactggctcaccttcgggtgggcctttctgcgtttatatactagagagagaatataaaaagccagattattaatccggcttttttattattt"
| + | |
- | terminator1.description = "B0014 containing BOO12 and BOO11 terminators"
| + | |
- | terminator2 = new Object()
| + | |
- | terminator2.sequence = "tcacactggctcaccttcgggtgggcctttctgcgtttatatactagagagagaatataaaaagccagattattaatccggcttttttattatttt"
| + | |
- | terminator2.description = "Terminator 2"
| + | |
- | terminators[0] = terminator1
| + | |
- | terminators[1] = terminator2
| + | |
- | addForbiddenSequence(terminators,'noTarget')
| + | |
- | return terminators
| + | |
- | }
| + | |
- | | + | |
- | function getRBS(){
| + | |
- | rbs = new Array()
| + | |
- | rbs1 = new Object()
| + | |
- | rbs1.sequence = "tcacacaggaaag"
| + | |
- | rbs1.description = "BBa_B0032"
| + | |
- | rbs2 = new Object()
| + | |
- | rbs2.sequence = "aaaaaaaaaaaccccaa"
| + | |
- | rbs2.description = "RBS2"
| + | |
- | rbs[0] = rbs1
| + | |
- | rbs[1] = rbs2
| + | |
- | addForbiddenSequence(rbs,'noTarget')
| + | |
- | return rbs
| + | |
- | }
| + | |
- | | + | |
- | function addForbiddenSequence(array,type){
| + | |
- | if (type == 'hasTarget'){
| + | |
- | for (item in array){
| + | |
- | forbiddenSequences.addSite(array[item].description,array[item].target)
| + | |
- | }
| + | |
- | } else{
| + | |
- | for (item in array){
| + | |
- | forbiddenSequences.addSite(array[item].description,array[item].sequence)
| + | |
- | }
| + | |
- | }
| + | |
- |
| + | |
- | }
| + | |
- | | + | |
- | function getDate(){
| + | |
- | today = new Date()
| + | |
- | dd = today.getDate()
| + | |
- | mm = today.getMonth()+1
| + | |
- | yyyy = today.getFullYear()
| + | |
- | if(dd<10){
| + | |
- | dd='0'+dd
| + | |
- | }
| + | |
- | if(mm<10){
| + | |
- | mm='0'+mm
| + | |
- | }
| + | |
- | today = dd+'-'+mm.substring(0,2)+'-'+yyyy;
| + | |
- | return today
| + | |
- | }
| + | |
- | | + | |
- | function generateWhiteSpace(amount){
| + | |
- | output = ''
| + | |
- | for (i=0;i<amount;i++){
| + | |
- | output += ' '
| + | |
- | }
| + | |
- | return output
| + | |
- | }
| + | |
- | | + | |
- | function staticGenbank(name){
| + | |
- | output = 'LOCUS'
| + | |
- | output += generateWhiteSpace(16)
| + | |
- | output += name
| + | |
- | output += generateWhiteSpace(8)
| + | |
- | output += memoryPlasmid.dna.length+' bp DNA '
| + | |
- | output += generateWhiteSpace(3)
| + | |
- | output += 'linear'
| + | |
- | output += generateWhiteSpace(7)
| + | |
- | output += getDate()+'<br>'
| + | |
- | output += 'DEFINITION<br>'
| + | |
- | output += 'ACCESSION<br>'
| + | |
- | output += 'VERSION<br>'
| + | |
- | output += 'SOURCE<br>'
| + | |
- | output += ' ORGANISM<br>'
| + | |
- | output += 'COMMENT<br>'
| + | |
- | output += 'FEATURES'
| + | |
- | output += generateWhiteSpace(13)
| + | |
- | output += 'Location/Qualifiers<br>'
| + | |
- | return output
| + | |
- | }
| + | |
- | | + | |
- | function genbankRestriction(targetSites){
| + | |
- | restrictionPlasmidOutput = staticGenbank('restriction_plasmid')
| + | |
- | restrictionOrigin = memoryPlasmid.features[1].sequence
| + | |
- | for (key in targetSites){
| + | |
- | restrictionOrigin += randomDNA(10)
| + | |
- | restrictionPlasmidOutput += generateWhiteSpace(5)
| + | |
- | restrictionPlasmidOutput += 'misc_feature'
| + | |
- | restrictionPlasmidOutput += generateWhiteSpace(5)
| + | |
- | restrictionPlasmidOutput += restrictionOrigin.length+1+'...'
| + | |
- | restrictionOrigin += targetSites[key].zincFinger
| + | |
- | restrictionPlasmidOutput += restrictionOrigin.length+'<br>'
| + | |
- | restrictionOrigin += randomDNA(10)
| + | |
- | restrictionPlasmidOutput += generateWhiteSpace(5)
| + | |
- | restrictionPlasmidOutput += 'misc_feature'
| + | |
- | restrictionPlasmidOutput += generateWhiteSpace(5)
| + | |
- | restrictionPlasmidOutput += restrictionOrigin.length+1+'...'
| + | |
- | restrictionOrigin += targetSites[key].methyltransferase
| + | |
- | restrictionPlasmidOutput += restrictionOrigin.length+'<br>'
| + | |
- | restrictionOrigin += targetSites[key].methyltransferase
| + | |
- | }
| + | |
- | restrictionOrigin = restrictionOrigin.toLowerCase()
| + | |
- | restrictionOrigin = restrictionOrigin.replace(/[atgc]{10}/g,'$& ').replace(/amp;/g,'').split(' ')
| + | |
- | pos = 1
| + | |
- | newString = ''
| + | |
- | restrictionPlasmidOutput += 'ORIGIN<br>'
| + | |
- | for (i=0;i<restrictionOrigin.length;i++){
| + | |
- | newString = newString+' '+restrictionOrigin[i]
| + | |
- | if ((i+1)%6===0){
| + | |
- | whiteSpace = ''
| + | |
- | for (j=0;j<9-pos.toString().length;j++){
| + | |
- | whiteSpace+= ' '
| + | |
- | }
| + | |
- | newString = whiteSpace+pos + ' ' + newString
| + | |
- | restrictionPlasmidOutput+=newString+'<br>'
| + | |
- | newString = ''
| + | |
- | } else if ((i+1)%6==1){
| + | |
- | if (i!=0){
| + | |
- | pos+=60
| + | |
- | }
| + | |
- | }
| + | |
- | }
| + | |
- | if (restrictionOrigin.length%6 != 0){
| + | |
- | newString = ''
| + | |
- | whiteSpace = ''
| + | |
- | for (j=0;j<9-pos.toString().length;j++){
| + | |
- | whiteSpace+= ' '
| + | |
- | }
| + | |
- | newString+=whiteSpace+pos
| + | |
- | for (i=0;i<(restrictionOrigin.length%6);i++){
| + | |
- | newString+=' '+restrictionOrigin[restrictionOrigin.length-restrictionOrigin.length%6+i]
| + | |
- | }
| + | |
- | restrictionPlasmidOutput+=newString+'<br>'
| + | |
- | }
| + | |
- | restrictionSiteWindow = window.open()
| + | |
- | restrictionSiteWindow.document.write(restrictionPlasmidOutput)
| + | |
- | restrictionSiteWindow.focus()
| + | |
- | }
| + | |
- | function genbankMemory(){
| + | |
- | memoryPlasmidOutput = staticGenbank('memory_plasmid')
| + | |
- | for (item in memoryPlasmid.memoryObjects){
| + | |
- | for (key in memoryPlasmid.memoryObjects[item]){
| + | |
- | memoryPlasmidOutput += generateWhiteSpace(5)
| + | |
- | memoryPlasmidOutput += 'misc_feature'
| + | |
- | memoryPlasmidOutput += generateWhiteSpace(5)
| + | |
- | memoryPlasmidOutput += memoryPlasmid.memoryObjects[item][key].start+'...'+memoryPlasmid.memoryObjects[item][key].end+'<br>'
| + | |
- | memoryPlasmidOutput += generateWhiteSpace(10)
| + | |
- | memoryPlasmidOutput += '/label='+memoryPlasmid.memoryObjects[item][key].description+'<br>'
| + | |
- | }
| + | |
- |
| + | |
- | }
| + | |
- | origin = memoryPlasmid.dna
| + | |
- | origin = origin.replace(/[atgc]{10}/g,'$& ').replace(/amp;/g,'').split(' ')
| + | |
- | pos = 1
| + | |
- | newString = ''
| + | |
- | memoryPlasmidOutput += 'ORIGIN<br>'
| + | |
- | for (i=0;i<origin.length;i++){
| + | |
- | newString = newString+' '+origin[i]
| + | |
- | if ((i+1)%6===0){
| + | |
- | whiteSpace = ''
| + | |
- | for (j=0;j<9-pos.toString().length;j++){
| + | |
- | whiteSpace+= ' '
| + | |
- | }
| + | |
- | newString = whiteSpace+pos + ' ' + newString
| + | |
- | memoryPlasmidOutput+=newString+'<br>'
| + | |
- | newString = ''
| + | |
- | } else if ((i+1)%6==1){
| + | |
- | if (i!=0){
| + | |
- | pos+=60
| + | |
- | }
| + | |
- | }
| + | |
- | }
| + | |
- | if (origin.length%6 != 0){
| + | |
- | newString = ''
| + | |
- | whiteSpace = ''
| + | |
- | for (j=0;j<9-pos.toString().length;j++){
| + | |
- | whiteSpace+= ' '
| + | |
- | }
| + | |
- | newString+=whiteSpace+pos
| + | |
- | for (i=0;i<(origin.length%6);i++){
| + | |
- | newString+=' '+origin[origin.length-origin.length%6+i]
| + | |
- | }
| + | |
- | memoryPlasmidOutput+=newString+'<br>'
| + | |
- | }
| + | |
- |
| + | |
- | myWindow=window.open()
| + | |
- | myWindow.document.write(memoryPlasmidOutput)
| + | |
- | myWindow.focus()
| + | |
- |
| + | |
- | }
| + | |
- | | + | |
- | function formatPlasmidInput(backbone){
| + | |
- | backbone = backbone.split('\n')
| + | |
- | originBoolean = false
| + | |
- | backboneName = ''
| + | |
- | sequence = ''
| + | |
- | if (backbone[0].toLowerCase().indexOf('locus') != -1){
| + | |
- | for (i=0;i<backbone.length;i++){
| + | |
- | if (originBoolean === true){
| + | |
- | if (backbone[i].indexOf('//') == -1){
| + | |
- | appendThis = backbone[i].replace(/[0-9]|\s|\n|\t/g,'')
| + | |
- | sequence = sequence+appendThis
| + | |
- | } else{
| + | |
- | originalBoolean = false
| + | |
- | }
| + | |
- | }
| + | |
- | if (backbone[i].indexOf('locus') != -1){
| + | |
- | backboneName = backbone[i].split(/\s+|\t+/g)[1]
| + | |
- | }
| + | |
- | if (backbone[i].indexOf('origin') != -1){
| + | |
- | originBoolean = true
| + | |
- | }
| + | |
- | }
| + | |
- | } else if (backbone[0][0] == '>'){
| + | |
- | for (i=0;i<backbone.length;i++){
| + | |
- | if (backbone[i][0] != '>'){
| + | |
- | appendThis = backbone[i].replace(/[0-9]|\s|\n|\t/g,'')
| + | |
- | sequence = sequence+appendThis
| + | |
- | } else{
| + | |
- | backboneName = backbone[i].replace('>','')
| + | |
- | }
| + | |
- | }
| + | |
- | }
| + | |
- | memoryPlasmid.addFeature(1,sequence.length,'Backbone',sequence,backboneName,'')
| + | |
- | return sequence
| + | |
- | }
| + | |
- | | + | |
- | function feature(start,end,type,sequence,description,featureObject){
| + | |
- | this.start = start;
| + | |
- | this.end = end;
| + | |
- | this.type = type;
| + | |
- | this.sequence = sequence;
| + | |
- | this.description = description;
| + | |
- | this.featureObject = featureObject
| + | |
- | }
| + | |
- | | + | |
- | var restrictionPlasmid = {
| + | |
- | backboneName : '',
| + | |
- | dna : '',
| + | |
- | features : {},
| + | |
- | setBackboneName : function(backboneName){
| + | |
- | restrictionlasmid.backboneName = backboneName
| + | |
- | },
| + | |
- | setDNA : function(dna){
| + | |
- | restrictionPlasmid.dna = dna
| + | |
- | },
| + | |
- | addFeature : function(start,end,type,sequence,description){
| + | |
- | restrictionPlasmid.features[start] = new feature(start,end,type,sequence,description)
| + | |
- | },
| + | |
- | addRecognitionAreaObject : function(zfTarget,mtaseTarget){
| + | |
- | | + | |
- | recognitionPlasmid.zfTarget = zfTarget
| + | |
- | recognitionPlasmid.mtaseTarget = mtaseTarget
| + | |
- | }
| + | |
- | }
| + | |
- | | + | |
- | var memoryPlasmid = {
| + | |
- | backboneName : '',
| + | |
- | dna : '',
| + | |
- | features : {},
| + | |
- | memoryObjects : {},
| + | |
- | setBackboneName : function(backboneName){
| + | |
- | memoryPlasmid.backboneName = backboneName
| + | |
- | },
| + | |
- | setDNA : function(dna){
| + | |
- | memoryPlasmid.dna = dna
| + | |
- | },
| + | |
- | addMemoryObject : function(sensor,rbs,zincFinger,linker,mycTag,methyltransferase,terminator){
| + | |
- | memoryObject = new Object()
| + | |
- | memoryObject.sensor = sensor
| + | |
- | memoryObject.rbs = rbs
| + | |
- | memoryObject.zincFinger = zincFinger
| + | |
- | memoryObject.linker = linker
| + | |
- | memoryObject.mycTag = mycTag
| + | |
- | memoryObject.methyltransferase = methyltransferase
| + | |
- | memoryObject.terminator = terminator
| + | |
- | memoryPlasmid.memoryObjects[sensor.start] = memoryObject
| + | |
- | },
| + | |
- | addFeature : function(start,end,type,sequence,description){
| + | |
- | memoryPlasmid.features[start] = new feature(start,end,type,sequence,description)
| + | |
- | }
| + | |
- | }
| + | |
- | | + | |
- | function sensorObject(name,sequence){
| + | |
- | this.name = name
| + | |
- | this.sequence = sequence
| + | |
- |
| + | |
- | }
| + | |
- |
| + | |
- | function formatSensors(sensors){
| + | |
- | sensorArray = new Array()
| + | |
- | if (sensors.indexOf('LOCUS') != -1){
| + | |
- | sensors = sensors.split('LOCUS')
| + | |
- | sensors.reverse().pop()
| + | |
- | for (i=0;i<sensors.length;i++){
| + | |
- | originBoolean = false
| + | |
- | sensorName = ''
| + | |
- | sequence = ''
| + | |
- | sensor = sensors[i].split('\n')
| + | |
- | for (j=0;j<sensor.length;j++){
| + | |
- | if (j===0){
| + | |
- | sensorName = sensor[j]
| + | |
- | }
| + | |
- | if (originBoolean === true){
| + | |
- | if (sensor[j].indexOf('//') == -1){
| + | |
- | appendThis = sensor[j].replace(/[0-9]|\s|\n|\t/g,'')
| + | |
- | sequence += appendThis
| + | |
- | } else {
| + | |
- | originBoolean = false
| + | |
- | }
| + | |
- | }
| + | |
- | if (sensor[j].indexOf('ORIGIN') != -1){
| + | |
- | originBoolean = true
| + | |
- | }
| + | |
- | }
| + | |
- | sensorArray[i] = new sensorObject(sensorName,sequence)
| + | |
- | }
| + | |
- | } else if (sensors[0] == '>'){
| + | |
- | sensors = sensors.split('//')
| + | |
- | sensors.pop()
| + | |
- | sensorName = ''
| + | |
- | for (i=0;i<sensors.length;i++){
| + | |
- | sensor = sensors[i].split('\n')
| + | |
- | sequence = ''
| + | |
- | for (j=0;j<sensor.length;j++){
| + | |
- | if (sensor[j][0] != '>'){
| + | |
- | appendThis = sensor[j].replace(/[0-9]|\s|\n|\t/g,'')
| + | |
- | sequence = sequence+appendThis
| + | |
- | } else if (sensor[j][0] == '>'){
| + | |
- | sensorName = sensor[j].replace('>','')
| + | |
- | }
| + | |
- | }
| + | |
- | sensorArray[i] = new sensorObject(sensorName,sequence)
| + | |
- | }
| + | |
- | }
| + | |
- | return sensorArray
| + | |
- | }
| + | |
- | | + | |
- | function formatPartsregistryPromoters(){
| + | |
- | promoters = new Array()
| + | |
- | $("input:checkbox[name=promoter]:checked").each(function(){
| + | |
- | promoter = $(this).val().split(':')
| + | |
- | promoters.push(new sensorObject(promoter[0],promoter[2]))
| + | |
- | })
| + | |
- | return promoters
| + | |
- | }
| + | |
- | | + | |
- | function configuratePlasmid(sensorArray,number){
| + | |
- | memoryPlasmid.features = {}
| + | |
- | memoryPlasmid.memoryObjects = {}
| + | |
- | backbone = document.plasmidForm.plasmid.value.toLowerCase()
| + | |
- | methyltransferases = getMethyltransferases()
| + | |
- | zincFingers = getZincFingers()
| + | |
- | linkers = getLinkers()
| + | |
- | mycTags = getMycTags()
| + | |
- | rbs = getRBS()
| + | |
- | terminators = getTerminators()
| + | |
- | plasmidSequence = formatPlasmidInput(backbone)
| + | |
- | memoryPlasmid.setDNA(plasmidSequence)
| + | |
- | for (i=0;i<sensorArray.length;i++){
| + | |
- | featureArray = new Array()
| + | |
- | featureArray[0] = new feature(memoryPlasmid.dna.length+1,memoryPlasmid.dna.length+sensorArray[i].sequence.length,'Sensor',sensorArray[i].sequence,sensorArray[i].name,sensorArray[i])
| + | |
- | memoryPlasmid.setDNA(memoryPlasmid.dna+sensorArray[i].sequence)
| + | |
- | j = Math.floor((Math.random()*rbs.length))
| + | |
- | featureArray[1] = new feature(memoryPlasmid.dna.length+1,memoryPlasmid.dna.length+rbs[j].sequence.length,'RBS',rbs[j].sequence,rbs[j].description,rbs[j])
| + | |
- | memoryPlasmid.setDNA(memoryPlasmid.dna+rbs[j].sequence+randomDNA(3))
| + | |
- | memoryPlasmid.setDNA(memoryPlasmid.dna+'atg'+randomDNA(10))
| + | |
- | for (j=0;j<zincFingers.length;j++){
| + | |
- | if (checkOccurrence(zincFingers[j].target.toLowerCase(),memoryPlasmid.dna) === true || checkOccurrence(zincFingers[j].sequence.toLowerCase(),memoryPlasmid.dna) === true){
| + | |
- | continue
| + | |
- | } else{
| + | |
- | featureArray[2] = new feature(memoryPlasmid.dna.length+1,memoryPlasmid.dna.length+zincFingers[j].sequence.length,'Zinc Finger',zincFingers[j].sequence,'Zinc Finger '+zincFingers[j].description.split('|')[0],zincFingers[j])
| + | |
- | memoryPlasmid.setDNA(memoryPlasmid.dna+zincFingers[j].sequence)
| + | |
- | break
| + | |
- | }
| + | |
- | }
| + | |
- | j = Math.floor((Math.random()*linkers.length))
| + | |
- | featureArray[3] = new feature(memoryPlasmid.dna.length+1,memoryPlasmid.dna.length+linkers[j].sequence.length,'Linker',linkers[j].sequence,linkers[j].description,linkers[j])
| + | |
- | memoryPlasmid.setDNA(memoryPlasmid.dna+linkers[j].sequence)
| + | |
- | j = Math.floor((Math.random()*mycTags.length))
| + | |
- | featureArray[4] = new feature(memoryPlasmid.dna.length+1,memoryPlasmid.dna.length+mycTags[j].sequence.length,'Myc Tag',mycTags[j].sequence,mycTags[j].description,mycTags[j])
| + | |
- | memoryPlasmid.setDNA(memoryPlasmid.dna+mycTags[j].sequence)
| + | |
- | j = Math.floor((Math.random()*methyltransferases.length))
| + | |
- | featureArray[5] = new feature(memoryPlasmid.dna.length+1,memoryPlasmid.dna.length+methyltransferases[j].sequence.length,'Methyltransferase',methyltransferases[j].sequence,methyltransferases[j].description,methyltransferases[j])
| + | |
- | memoryPlasmid.setDNA(memoryPlasmid.dna+methyltransferases[j].sequence)
| + | |
- | j = Math.floor((Math.random()*terminators.length))
| + | |
- | featureArray[6] = new feature(memoryPlasmid.dna.length+1,memoryPlasmid.dna.length+terminators[j].sequence.length,'Terminator',terminators[j].sequence,terminators[j].description,terminators[j])
| + | |
- | memoryPlasmid.setDNA(memoryPlasmid.dna+terminators[j].sequence+randomDNA(10))
| + | |
- | memoryPlasmid.addMemoryObject(featureArray[0],featureArray[1],featureArray[2],featureArray[3],featureArray[4],featureArray[5],featureArray[6])
| + | |
- | }
| + | |
- | restrictionPlasmid.setDNA(memoryPlasmid.features[1].sequence)
| + | |
- | for (item in memoryPlasmid.memoryObjects){
| + | |
- | featureArray = new Array()
| + | |
- | mtaseStart = restrictionPlasmid.dna.length+1
| + | |
- | mtaseEnd = restrictionPlasmid.dna.length+memoryPlasmid.memoryObjects[item].methyltransferase.featureObject.target.length
| + | |
- | mtaseType = 'Restriction Site'
| + | |
- | mtaseTarget = memoryPlasmid.memoryObjects[item].methyltransferase.featureObject.target.toLowerCase()
| + | |
- | mtaseDescription = memoryPlasmid.memoryObjects[item].methyltransferase.featureObject.description+' restriction site'
| + | |
- | featureArray[0] = new feature(mtaseStart,mtaseEnd,mtaseType,mtaseTarget,mtaseDescription)
| + | |
- | restrictionPlasmid.setDNA(restrictionPlasmid.dna+mtaseTarget)
| + | |
- | zfStart = restrictionPlasmid.dna.length+1
| + | |
- | zfEnd = restrictionPlasmid.dna.length+memoryPlasmid.memoryObjects[item].zincFinger.featureObject.target.length
| + | |
- | zfType = 'Restriction Site'
| + | |
- | zfTarget = memoryPlasmid.memoryObjects[item].zincFinger.featureObject.target
| + | |
- | zfDescription = memoryPlasmid.memoryObjects[item].zincFinger.featureObject.description+' restriction site'
| + | |
- | featureArray[1] = new feature(zfStart,zfEnd,zfType,zfTarget,zfDescription)
| + | |
- | restrictionPlasmid.setDNA(restrictionPlasmid.dna+mtaseTarget)
| + | |
- | restrictionPlasmid.mtaseTarget = featureArray[0]
| + | |
- | restrictionPlasmid.zfTarget = featureArray[1]
| + | |
- | }
| + | |
- | json = createJSONMemory(number)
| + | |
- | //genbankMemory()
| + | |
- | $('#visualizationButtons').append('<input type="hidden" name="json'+number+'" value="'+escape(JSON.stringify(json))+'"/><input class="submit" type="submit" value="Memory Plasmid '+(number+1)+'" onclick="visualization('+number+');return false"/>');
| + | |
- | }
| + | |
- | | + | |
- | function setup(){
| + | |
- | $('#visualizationButtons').empty()
| + | |
- | $('#infovis').empty()
| + | |
- | $('#readout').empty()
| + | |
- | addForbiddenSequences()
| + | |
- | sensors = document.plasmidForm.sensors.value.toLowerCase()
| + | |
- | sensorArray = formatSensors(sensors)
| + | |
- | promoters = formatPartsregistryPromoters()
| + | |
- | sensorArray = promoters.concat(sensorArray)
| + | |
- | tempArray = new Array()
| + | |
- | j = 0
| + | |
- | number = 0
| + | |
- | targetSites = new Array()
| + | |
- | for (sensor in sensorArray){
| + | |
- | tempArray[j] = sensorArray[sensor]
| + | |
- | j++
| + | |
- | if (j%5 === 0){
| + | |
- | if ( j !== 0){
| + | |
- | configuratePlasmid(tempArray,number)
| + | |
- | number++
| + | |
- | tempArray = new Array()
| + | |
- | j = 0
| + | |
- | for (item in memoryPlasmid.memoryObjects){
| + | |
- | site = new Object()
| + | |
- | site.zincFingerDescription = memoryPlasmid.memoryObjects[item].zincFinger.featureObject.description
| + | |
- | site.zincFinger = memoryPlasmid.memoryObjects[item].zincFinger.featureObject.target
| + | |
- | site.zincFingerLength = site.zincFinger.length
| + | |
- | site.methyltransferaseDescription = memoryPlasmid.memoryObjects[item].methyltransferase.featureObject.description
| + | |
- | site.methyltransferase = memoryPlasmid.memoryObjects[item].methyltransferase.featureObject.target
| + | |
- | site.methyltransferaseLength = site.methyltransferase.length
| + | |
- | site.sensor = memoryPlasmid.memoryObjects[item].sensor.description
| + | |
- | targetSites.push(site)
| + | |
- | }
| + | |
- | }
| + | |
- |
| + | |
- | }
| + | |
- | }
| + | |
- | if (j%5 !== 0){
| + | |
- | configuratePlasmid(tempArray,number)
| + | |
- | for (item in memoryPlasmid.memoryObjects){
| + | |
- | site = new Object()
| + | |
- | site.zincFingerDescription = memoryPlasmid.memoryObjects[item].zincFinger.featureObject.description
| + | |
- | site.zincFinger = memoryPlasmid.memoryObjects[item].zincFinger.featureObject.target
| + | |
- | site.zincFingerLength = site.zincFinger.length
| + | |
- | site.methyltransferaseDescription = memoryPlasmid.memoryObjects[item].methyltransferase.featureObject.description
| + | |
- | site.methyltransferase = memoryPlasmid.memoryObjects[item].methyltransferase.featureObject.target
| + | |
- | site.methyltransferaseLength = site.methyltransferase.length
| + | |
- | site.sensor = memoryPlasmid.memoryObjects[item].sensor.description
| + | |
- | targetSites.push(site)
| + | |
- | }
| + | |
- | }
| + | |
- | //genbankRestriction(targetSites)
| + | |
- | json = createJSONRestriction(targetSites)
| + | |
- | $('#visualizationButtons').append('<input type="hidden" name="json-1" value="'+escape(JSON.stringify(json))+'"/><input class="submit" type="submit" value="Restriction Plasmid" onclick="visualization(-1);return false"/>');
| + | |
- | $('#readout').append('<input type="textfield" name="readout" value=""/><input class="submit" type="submit" value="Submit" onClick="getReadout();return false"/>');
| + | |
- | }
| + | |
- | | + | |
- | function getReadout(){
| + | |
- | inputArray = new Array()
| + | |
- | json = JSON.parse(unescape($(':input[name=json-1]').val()))
| + | |
- | inputs = $(':input[name=readout]').val()
| + | |
- | inputArray = inputs.split(',')
| + | |
- | totalLength = json.children[0].data.length
| + | |
- | uncutArray = new Array()
| + | |
- | i = 0
| + | |
- | for (child in json.children){
| + | |
- | totalLength+=json.children[child].data.length
| + | |
- | if (json.children[child].data.description.indexOf('Methyltransferase') != -1){
| + | |
- | uncutArray[i] = [json.children[child].id,totalLength]
| + | |
- | i++
| + | |
- | }
| + | |
- | }
| + | |
- | bandsArray = new Array ()
| + | |
- | j = 0
| + | |
- | for (item in uncutArray){
| + | |
- | i = 0
| + | |
- | tempBandArray = new Array()
| + | |
- | tempBandArray[i] = [uncutArray[item][1],uncutArray[item][0]]
| + | |
- | i++
| + | |
- | for (bandArray in bandsArray){
| + | |
- | for (band in bandsArray[bandArray]){
| + | |
- | tempBandArray[i] = [uncutArray[item][1] - bandsArray[bandArray][band][0],uncutArray[item][0]]
| + | |
- | i++
| + | |
- | }
| + | |
- | }
| + | |
- | bandsArray[j] = tempBandArray
| + | |
- | j++
| + | |
- | }
| + | |
- | matchingBands = new Array()
| + | |
- | i = 0
| + | |
- | for (input in inputArray){
| + | |
- | difference = 100000000000
| + | |
- | bandSize = inputArray[input]
| + | |
- | for (bandArray in bandsArray){
| + | |
- | for (band in bandsArray[bandArray]){
| + | |
- | if (bandSize > bandsArray[bandArray][band][0]){
| + | |
- | tempDifference = bandSize - bandsArray[bandArray][band][0]
| + | |
- | } else{
| + | |
- | tempDifference = bandsArray[bandArray][band][0] - bandSize
| + | |
- | }
| + | |
- | if (tempDifference < difference){
| + | |
- | matchingBand = bandsArray[bandArray][band][1]
| + | |
- | difference = tempDifference
| + | |
- | }
| + | |
- | }
| + | |
- | }
| + | |
- | matchingBands[i] = matchingBand
| + | |
- | i++
| + | |
- | }
| + | |
- | i = 0
| + | |
- | sensedSignals = new Array()
| + | |
- | for (matchingBand in matchingBands){
| + | |
- | for (child in json.children){
| + | |
- | if (json.children[child].id == matchingBands[matchingBand]){
| + | |
- | sensedSignals[i] = json.children[child].data.sensor
| + | |
- | i++
| + | |
- | }
| + | |
- | }
| + | |
- | }
| + | |
- | for (signal in sensedSignals){
| + | |
- | $('#readout').append('<br>'+sensedSignals[signal])
| + | |
- | }
| + | |
- | }
| + | |
- | | + | |
- | function createJSONRestriction(targetSites){
| + | |
- | json = {
| + | |
- | "children": [],
| + | |
- | "data": {
| + | |
- | "$type": "none",
| + | |
- | },
| + | |
- | "id": "Source",
| + | |
- | "name": "Restriction Plasmid"
| + | |
- | };
| + | |
- |
| + | |
- | json.children[0] = {}
| + | |
- | json.children[0].data = {}
| + | |
- | json.children[0].data.description = memoryPlasmid.features[1].description
| + | |
- | json.children[0].data.$color = '#B2ABF4'
| + | |
- | json.children[0].data.length = memoryPlasmid.features[1].end - memoryPlasmid.features[1].start
| + | |
- | json.children[0].data.$angularWidth = 1000
| + | |
- | json.children[0].data.type = memoryPlasmid.features[1].type
| + | |
- | json.children[0].data.dna = memoryPlasmid.dna
| + | |
- | json.children[0].children = []
| + | |
- | json.children[0].name = memoryPlasmid.features[1].description
| + | |
- | json.children[0].id = memoryPlasmid.features[1].description
| + | |
- | totalLength = memoryPlasmid.dna.length
| + | |
- | i = 1
| + | |
- | for (item in targetSites){
| + | |
- | site = targetSites[item]
| + | |
- | json.children[i] = {}
| + | |
- | json.children[i].data = {}
| + | |
- | json.children[i].children = []
| + | |
- | json.children[i].data.description = '120bp random DNA'
| + | |
- | json.children[i].data.$color = '#FFFF00'
| + | |
- | json.children[i].data.length = 120
| + | |
- | json.children[i].data.$angularWidth = 1000
| + | |
- | json.children[i].data.dna = randomDNA(120+i*10)
| + | |
- | json.children[i].name = '120bp DNA'
| + | |
- | json.children[i].id = i
| + | |
- | i++
| + | |
- | json.children[i] = {}
| + | |
- | json.children[i].data = {}
| + | |
- | json.children[i].children = []
| + | |
- | json.children[i].data.description = site.zincFingerDescription
| + | |
- | json.children[i].data.$color = '#FF0000'
| + | |
- | json.children[i].data.length = site.zincFingerLength
| + | |
- | json.children[i].data.$angularWidth = 1000
| + | |
- | json.children[i].data.dna = site.zincFinger
| + | |
- | json.children[i].name = site.zincFingerDescription.split('|')[0]+'|'+site.zincFingerDescription.split('|')[1]
| + | |
- | json.children[i].id = i
| + | |
- | i++
| + | |
- | json.children[i] = {}
| + | |
- | json.children[i].data = {}
| + | |
- | json.children[i].children = []
| + | |
- | json.children[i].data.description = '120bp random DNA'
| + | |
- | json.children[i].data.$color = '#FFFF00'
| + | |
- | json.children[i].data.length = 120
| + | |
- | json.children[i].data.$angularWidth = 1000
| + | |
- | json.children[i].data.dna = randomDNA(120)
| + | |
- | json.children[i].name = '120bp DNA'
| + | |
- | json.children[i].id = i
| + | |
- | i++
| + | |
- | json.children[i] = {}
| + | |
- | json.children[i].data = {}
| + | |
- | json.children[i].children = []
| + | |
- | json.children[i].data.description = 'Methyltransferase: '+site.methyltransferaseDescription
| + | |
- | json.children[i].data.$color = '#0000CD'
| + | |
- | json.children[i].data.length = site.methyltransferaseLength
| + | |
- | json.children[i].data.$angularWidth = 1000
| + | |
- | json.children[i].data.dna = site.methyltransferase
| + | |
- | json.children[i].data.sensor = site.sensor
| + | |
- | json.children[i].name = site.methyltransferaseDescription.split('|')[0]
| + | |
- | json.children[i].id = i
| + | |
- | i++
| + | |
- | json.children[i] = {}
| + | |
- | json.children[i].data = {}
| + | |
- | json.children[i].children = []
| + | |
- | json.children[i].data.description = '120bp random DNA'
| + | |
- | json.children[i].data.$color = '#FFFF00'
| + | |
- | json.children[i].data.length = 120
| + | |
- | json.children[i].data.$angularWidth = 1000
| + | |
- | json.children[i].data.dna = randomDNA(120)
| + | |
- | json.children[i].name = '120bp DNA'
| + | |
- | json.children[i].id = i
| + | |
- | i++
| + | |
- | json.children[i] = {}
| + | |
- | json.children[i].data = {}
| + | |
- | json.children[i].children = []
| + | |
- | json.children[i].data.description = site.zincFingerDescription
| + | |
- | json.children[i].data.$color = '#FF0000'
| + | |
- | json.children[i].data.length = site.zincFingerLength
| + | |
- | json.children[i].data.$angularWidth = 1000
| + | |
- | json.children[i].data.dna = site.zincFinger
| + | |
- | json.children[i].name = site.zincFingerDescription.split('|')[0]+'|'+site.zincFingerDescription.split('|')[1]
| + | |
- | json.children[i].id = i
| + | |
- | i++
| + | |
- | }
| + | |
- | return json
| + | |
- | }
| + | |
- | | + | |
- | function createJSONMemory(number){
| + | |
- | var json = {}
| + | |
- | json = {
| + | |
- | "children": [],
| + | |
- | "data": {
| + | |
- | "$type": "none",
| + | |
- | },
| + | |
- | "id": "Source",
| + | |
- | "name": "Memory Plasmid"
| + | |
- | };
| + | |
- |
| + | |
- | json.children[0] = {}
| + | |
- | json.children[0].data = {}
| + | |
- | json.children[0].data.description = memoryPlasmid.features[1].description
| + | |
- | json.children[0].data.$color = '#B2ABF4'
| + | |
- | json.children[0].data.length = memoryPlasmid.features[1].end - memoryPlasmid.features[1].start
| + | |
- | json.children[0].data.$angularWidth = 1000
| + | |
- | json.children[0].data.type = memoryPlasmid.features[1].type
| + | |
- | json.children[0].data.dna = memoryPlasmid.dna
| + | |
- | json.children[0].children = []
| + | |
- | json.children[0].name = memoryPlasmid.features[1].description
| + | |
- | json.children[0].id = memoryPlasmid.features[1].description
| + | |
- | i = 1
| + | |
- | for (memoryObject in memoryPlasmid.memoryObjects){
| + | |
- | for (item in memoryPlasmid.memoryObjects[memoryObject]){
| + | |
- | json.children[i] = {}
| + | |
- | json.children[i].children = []
| + | |
- | json.children[i].data = {}
| + | |
- | json.children[i].data.description = memoryPlasmid.memoryObjects[memoryObject][item].description
| + | |
- | type = memoryPlasmid.memoryObjects[memoryObject][item].type
| + | |
- | if (type == 'Sensor'){
| + | |
- | color = '#00FFFF'
| + | |
- | } else if (type == 'RBS'){
| + | |
- | color = '#FFFF00'
| + | |
- | } else if (type == 'Zinc Finger'){
| + | |
- | color = '#800080'
| + | |
- | } else if (type == 'Linker'){
| + | |
- | color = '#00FF00'
| + | |
- | } else if (type == 'Myc Tag'){
| + | |
- | color = '#FF00FF'
| + | |
- | } else if (type == 'Methyltransferase'){
| + | |
- | color = '#FFA500'
| + | |
- | } else if (type == 'Terminator'){
| + | |
- | color = '#FF0000'
| + | |
- | } else{
| + | |
- | color = '#B2ABF4'
| + | |
- | }
| + | |
- | json.children[i].data.$color = color
| + | |
- | json.children[i].data.length = memoryPlasmid.memoryObjects[memoryObject][item].end - memoryPlasmid.memoryObjects[memoryObject][item].start
| + | |
- | json.children[i].data.$angularWidth = 1000
| + | |
- | json.children[i].data.type = type
| + | |
- | json.children[i].data.dna = memoryPlasmid.memoryObjects[memoryObject][item].sequence
| + | |
- | json.children[i].id = i
| + | |
- | if (memoryPlasmid.memoryObjects[memoryObject][item].description.length > 14){
| + | |
- | json.children[i].name = memoryPlasmid.memoryObjects[memoryObject][item].description.substring(0,14)
| + | |
- | } else{
| + | |
- | json.children[i].name = memoryPlasmid.memoryObjects[memoryObject][item].description
| + | |
- | }
| + | |
- | i++
| + | |
- | }
| + | |
- | }
| + | |
- | return json
| + | |
- |
| + | |
- | //end
| + | |
- | }
| + | |
- | </script> | + | |
- | </head>
| + | |
- | <body>
| + | |
- | <p>
| + | |
- | <form name='plasmidForm' class='rounded'>
| + | |
- | <div class='field'>
| + | |
- | <label for='Plasmid'>Plasmid:</label>
| + | |
- | <textarea type='text' class='input' name='plasmid' id='plasmid'>
| + | |
- | </textarea>
| + | |
- | <p class="hint">Enter your plasmid in fasta or genbank format</p>
| + | |
- | </div>
| + | |
- | <br>
| + | |
- | <div class='field'>
| + | |
- | <label for='sensors'>promoters:</label>
| + | |
- | <textarea type='text' class='input' name='sensors' id='sensors'></textarea>
| + | |
- | <p class="hint">Enter your sensors in fasta or genbank format</p>
| + | |
- | </div>
| + | |
- | <input type='hidden' name='zf' value='>N1|1|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=N1PE3130|Engineered construct|C2H2 (3F)|GGGGTAGAA
| + | |
- | gcgcaggcggcgctggaaccgaaagaaaaaccgtatgcgtgcccggaatgcggcaaaagc
| + | |
- | tttagccagagcagcaacctggtgcgccatcagcgcacccataccggcgaaaaaccgtat
| + | |
- | aaatgcccggaatgcggcaaaagctttagccagagcagcagcctggtgcgccatcagcgc
| + | |
- | acccataccggcgaaaaaccgtataaatgcccggaatgcggcaaaagctttagccgcagc
| + | |
- | gataaactggtgcgccatcagcgcacccataccggcaaaaaaaccagcggccaggcgggc
| + | |
- | >B3|2|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=B3PE3129|Engineered construct|C2H2 (3F)|GGAGGGGAC
| + | |
- | gcgcaggcggcgctggaaccgaaagaaaaaccgtatgcgtgcccggaatgcggcaaaagc
| + | |
- | tttagcgatccgggcaacctggtgcgccatcagcgcacccataccggcgaaaaaccgtat
| + | |
- | aaatgcccggaatgcggcaaaagctttagccgcagcgataaactggtgcgccatcagcgc
| + | |
- | acccataccggcgaaaaaccgtataaatgcccggaatgcggcaaaagctttagccagagc
| + | |
- | agccatctggtgcgccatcagcgcacccataccggcaaaaaaaccagcggccaggcgggc
| + | |
- | >Anti-BcrAbl|3|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=ABAE4134|Engineered construct|C2H2 (4F)|GACGCAGAAGCC
| + | |
- | gcggaagaaaaaccgtttcagtgccgcatttgcatgcgcaactttagcgatcgcagcagc
| + | |
- | ctgacccgccatacccgcacccataccggcgaaaaaccgtttcagtgccgcatttgcatg
| + | |
- | cgcaactttagccagggcggcaacctggtgcgccatctgcgcacccataccggcgaaaaa
| + | |
- | ccgtttcagtgccgcatttgcatgcgcaactttagccaggcggcgaccctgcagcgccat
| + | |
- | ctgaaaacccataccggcgaaaaaccgtttcagtgccgcatttgcatgcgcaactttagc
| + | |
- | gatcgcagcaacctggaacgccatacccgcacccataccggcgaaaaactggaacgcccg
| + | |
- | catcgcgat
| + | |
- | >C7-C7|4|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=C72E6127|Engineered construct|C2H2 (2x3F)|GCGTGGGCGGCGTGGGCG
| + | |
- | gaacgcccgtatgcgtgcccggtggaaagctgcgatcgccgctttagcaaaagcgcggat
| + | |
- | ctgaaacgccatattcgcattcataccggccagaaaccgtttcagtgccgcatttgcatg
| + | |
- | cgcaactttagccgcagcgatcatctgaccacccatattcgcacccataccggcgaaaaa
| + | |
- | ccgtttgcgtgcgatatttgcggccgcaaatttgcgcgcagcgatgaacgcaaacgccat
| + | |
- | accaaaattcataccggcgaaaaaccgtatgcgtgcccggtggaaagctgcgatcgccgc
| + | |
- | tttagcaaaagcgcggatctgaaacgccatattcgcattcataccggccagaaaccgttt
| + | |
- | cagtgccgcatttgcatgcgcaactttagccgcagcgatcatctgaccacccatattcgc
| + | |
- | acccataccggcgaaaaaccgtttgcgtgcgatatttgcggccgcaaatttgcgcgcagc
| + | |
- | gatgaacgcaaacgccataccaaaattcatctgcgccagaaagat
| + | |
- | >3x2F ZMS|5|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=ZMSE6114|Engineered construct|C2H2 (3x2F)|GCGGACGCGGCGTGGGCG
| + | |
- | gaacgcccgtatgcgtgcccggtggaaagctgcgatcgccgctttagccgcagcgatgaa
| + | |
- | ctgacccgccatattcgcattcataccggccagaaaccgtttcagtgccgcatttgcatg
| + | |
- | cgcaactttagccgcagcgatcatctgaccacccatattcgcacccataccggcggcgaa
| + | |
- | aaaccgtttgcgtgcgatatttgcggccgcaaatttgcgcgcagcgatgaacgcaaacgc
| + | |
- | cataccaaaattcataccggcgaacgcccgtatgcgtgcccggtggaaagctgcgatcgc
| + | |
- | cgctttagccgcagcgatgaactgacccgccatattcgcattcataccggcggccagaaa
| + | |
- | ccgtttcagtgccgcatttgcatgcgcaactttagcgatcgcagcaacctggaacgccat
| + | |
- | acccgcacccataccggcgaaaaaccgtttgcgtgcgatatttgcggccgcaaatttgcg
| + | |
- | cgcagcgatgaacgcaaacgccataccaaaattcatctgcgccagaaagat
| + | |
- | >268/NRE|6|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=NRCE6113|Engineered construct|C2H2 (2x3F)|AAGGGTTCAGGCGTGGGCG
| + | |
- | gaacgcccgtatgcgtgcccggtggaaagctgcgatcgccgctttagccgcagcgatgaa
| + | |
- | ctgacccgccatattcgcattcataccggccagaaaccgtttcagtgccgcatttgcatg
| + | |
- | cgcaactttagccgcagcgatcatctgaccacccatattcgcacccataccggcgaaaaa
| + | |
- | ccgtttgcgtgcgatatttgcggccgcaaatttgcgcgcagcgatgaacgcaaacgccat
| + | |
- | accaaaattcatctgcgccagaaagatggcgaacgcccgtatgcgtgcccggtggaaagc
| + | |
- | tgcgatcgccgctttagccagagccatgatctgaccaaacatattcgcattcataccggc
| + | |
- | cagaaaccgtttcagtgccgcatttgcatgcgcaactttagcgatagcagcaaactgagc
| + | |
- | cgccatattcgcacccataccggcgaaaaaccgtttgcgtgcgatatttgcggccgcaaa
| + | |
- | tttgcgcgcccggataaccgcaccgcgcataccaaaattcatctgcgccagaaagat
| + | |
- | >Sp1C-C7|7|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=SC7E6128|Engineered construct|C2H2 (2x3F)|GCGTGGGCGGGGGCGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | aaaaccagccatctgcgcgcgcatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgatgaactgcagcgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gatcatctgagcaaacatattaaaacccataccggcgaaaaaccgtatgcgtgcccggtg
| + | |
- | gaaagctgcgatcgccgctttagcaaaagcgcggatctgaaacgccatattcgcattcat
| + | |
- | accggccagaaaccgtttcagtgccgcatttgcatgcgcaactttagccgcagcgatcat
| + | |
- | ctgaccacccatattcgcacccataccggcgaaaaaccgtttgcgtgcgatatttgcggc
| + | |
- | cgcaaatttgcgcgcagcgatgaacgcaaacgccataccaaaattcatctgcgccagaaa
| + | |
- | gat
| + | |
- | >268//NRE|8|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=NRBE6112|Engineered construct|C2H2 (2x3F)|AAGGGTTCAGTGCGTGGGCG
| + | |
- | gaacgcccgtatgcgtgcccggtggaaagctgcgatcgccgctttagccgcagcgatgaa
| + | |
- | ctgacccgccatattcgcattcataccggccagaaaccgtttcagtgccgcatttgcatg
| + | |
- | cgcaactttagccgcagcgatcatctgaccacccatattcgcacccataccggcgaaaaa
| + | |
- | ccgtttgcgtgcgatatttgcggccgcaaatttgcgcgcagcgatgaacgcaaacgccat
| + | |
- | accaaaattcatctgcgccagaaagatggcggcggcagcgaacgcccgtatgcgtgcccg
| + | |
- | gtggaaagctgcgatcgccgctttagccagagccatgatctgaccaaacatattcgcatt
| + | |
- | cataccggccagaaaccgtttcagtgccgcatttgcatgcgcaactttagcgatagcagc
| + | |
- | aaactgagccgccatattcgcacccataccggcgaaaaaccgtttgcgtgcgatatttgc
| + | |
- | ggccgcaaatttgcgcgcccggataaccgcaccgcgcataccaaaattcatctgcgccag
| + | |
- | aaagat
| + | |
- | >E2C|9|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=E2CE6125|Engineered construct|C2H2 (2x3F)|GGGGCCGGAGCCGCAGTG
| + | |
- | gcgcaggcggcgctggaaccgggcgaaaaaccgtatgcgtgcccggaatgcggcaaaagc
| + | |
- | tttagccgcaaagatagcctggtgcgccatcagcgcacccataccggcgaaaaaccgtat
| + | |
- | aaatgcccggaatgcggcaaaagctttagccagagcggcgatctgcgccgccatcagcgc
| + | |
- | acccataccggcgaaaaaccgtataaatgcccggaatgcggcaaaagctttagcgattgc
| + | |
- | cgcgatctggcgcgccatcagcgcacccataccggcgaaaaaccgtatgcgtgcccggaa
| + | |
- | tgcggcaaaagctttagccagagcagccatctggtgcgccatcagcgcacccataccggc
| + | |
- | gaaaaaccgtataaatgcccggaatgcggcaaaagctttagcgattgccgcgatctggcg
| + | |
- | cgccatcagcgcacccataccggcgaaaaaccgtataaatgcccggaatgcggcaaaagc
| + | |
- | tttagccgcagcgataaactggtgcgccatcagcgcacccataccggcaaaaaaaccagc
| + | |
- | ggccaggcgggc
| + | |
- | >ZFPAP3|10|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=AP3E6135|Engineered construct|C2H2 (2x3F)|TACTTCTTCAACTCCATC
| + | |
- | gcgcaggcggcgctggaaccgaaagaaaaaccgtatgcgtgcccggaatgcggcaaaagc
| + | |
- | tttagccagagcagcagcctggtgcgccatcagcgcacccataccggcgaaaaaccgtat
| + | |
- | aaatgcccggaatgcggcaaaagctttagccagagcagcaacctggtgcgccatcagcgc
| + | |
- | acccataccggcgaaaaaccgtataaatgcccggaatgcggcaaaagctttagccagagc
| + | |
- | agcaacctggtgcgccatcagcgcacccataccggcgaaaaaccgtatgcgtgcccggaa
| + | |
- | tgcggcaaaagctttagcaccagcggcagcctggtgcgccatcagcgcacccataccggc
| + | |
- | gaaaaaccgtataaatgcccggaatgcggcaaaagctttagccagagcagccatctggtg
| + | |
- | cgccatcagcgcacccataccggcgaaaaaccgtataaatgcccggaatgcggcaaaagc
| + | |
- | tttagcaccagcggcaacctggtgcgccatcagcgcacccataccggcaaaaaaaccagc
| + | |
- | ggccaggcgggc
| + | |
- | >E3|11|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=E3PE6126|Engineered construct|C2H2 (2x3F)|GGAGCCGGAGCCGGAGTC
| + | |
- | gcgcaggcggcgctggaaccgggcgaaaaaccgtatgcgtgcccggaatgcggcaaaagc
| + | |
- | tttagcgatccgggcgcgctggtgcgccatcagcgcacccataccggcgaaaaaccgtat
| + | |
- | aaatgcccggaatgcggcaaaagctttagccagagcagccatctggtgcgccatcagcgc
| + | |
- | acccataccggcgaaaaaccgtataaatgcccggaatgcggcaaaagctttagcgattgc
| + | |
- | cgcgatctggcgcgccatcagcgcacccataccggcgaaaaaccgtatgcgtgcccggaa
| + | |
- | tgcggcaaaagctttagccagagcagccatctggtgcgccatcagcgcacccataccggc
| + | |
- | gaaaaaccgtataaatgcccggaatgcggcaaaagctttagcgattgccgcgatctggcg
| + | |
- | cgccatcagcgcacccataccggcgaaaaaccgtataaatgcccggaatgcggcaaaagc
| + | |
- | tttagccagagcagccatctggtgcgccatcagcgcacccataccggcaaaaaaaccagc
| + | |
- | ggccaggcgggc
| + | |
- | >MUT|13|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=MUTE3115|Engineered construct|C2H2 (3F)|GCGGACGCG
| + | |
- | gaacgcccgtatgcgtgcccggtggaaagctgcgatcgccgctttagccgcagcgatgaa
| + | |
- | ctgacccgccatattcgcattcataccggccagaaaccgtttcagtgccgcatttgcatg
| + | |
- | cgcaactttagcgatcgcagcaacctggaacgccatacccgcacccataccggcgaaaaa
| + | |
- | ccgtttgcgtgcgatatttgcggccgcaaatttgcgcgcagcgatgaacgcaaacgccat
| + | |
- | accaaaattcatctgcgccagaaagat
| + | |
- | >NRE|14|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=NRAE3111|Engineered construct|C2H2 (3F)|AAGGGTTCA
| + | |
- | gaacgcccgtatgcgtgcccggtggaaagctgcgatcgccgctttagccagagccatgat
| + | |
- | ctgaccaaacatattcgcattcataccggccagaaaccgtttcagtgccgcatttgcatg
| + | |
- | cgcaactttagcgatagcagcaaactgagccgccatattcgcacccataccggcgaaaaa
| + | |
- | ccgtttgcgtgcgatatttgcggccgcaaatttgcgcgcccggataaccgcaccgcgcat
| + | |
- | accaaaattcatctgcgccagaaagat
| + | |
- | >GNG-GA1|15|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GA1E3168|Engineered construct|C2H2 (3F)|GAGGAGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgataacctggcgcgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gataacctgacccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GA2|16|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GA2E3169|Engineered construct|C2H2 (3F)|GTGGAGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgataacctggcgcgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gatgcgctgacccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GA3|17|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GA3E3170|Engineered construct|C2H2 (3F)|GGGGAGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgataacctggcgcgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gatcatctgagccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GT3|18|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GT3E3174|Engineered construct|C2H2 (3F)|GGGGTGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgatgcgctgagccgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gatcatctgagccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GT2|19|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GT2E3173|Engineered construct|C2H2 (3F)|GTGGTGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgatgcgctgagccgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gatgcgctgacccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GT1|20|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GT1E3172|Engineered construct|C2H2 (3F)|GAGGTGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgatgcgctgagccgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gataacctgacccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GG4|21|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GG4E4179|Engineered construct|C2H2 (3F)|GCGGGGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgatcatctgacccgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gatgatctgacccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GA4|22|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GA4E3171|Engineered construct|C2H2 (3F)|GCGGAGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgataacctggcgcgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gatgatctgacccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GC1|23|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GC1E3180|Engineered construct|C2H2 (3F)|GAGGCGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgatgatctgcagcgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gataacctgacccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GG3|24|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GG3E3178|Engineered construct|C2H2 (3F)|GGGGGGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgatcatctgacccgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gatcatctgagccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GG2|25|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GG2E3177|Engineered construct|C2H2 (3F)|GTGGGGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgatcatctgacccgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gatgcgctgacccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GC2|26|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GC2E3181|Engineered construct|C2H2 (3F)|GTGGCGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgatgatctgcagcgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gatgcgctgacccgccatattaaaacccatcagaacaaaaaa
| + | |
- | >GNG-GC3|27|http://web.iitd.ac.in/~sundar/zifbase/prot_disp1.php?id=GC3E3182|Engineered construct|C2H2 (3F)|GGGGCGGGG
| + | |
- | gatccgggcaaaaaaaaacagcatatttgccatattcagggctgcggcaaagtgtatggc
| + | |
- | cgcagcgatcatctggcgcgccatctgcgctggcataccggcgaacgcccgtttatgtgc
| + | |
- | acctggagctattgcggcaaacgctttacccgcagcgatgatctgcagcgccataaacgc
| + | |
- | acccataccggcgaaaaaaaatttgcgtgcccggaatgcccgaaacgctttatgcgcagc
| + | |
- | gatcatctgagccgccatattaaaacccatcagaacaaaaaa'
| + | |
- | >
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_K086017:unmodified Lutz-Bujard LacO promoter:ttgtgagcggataacaagatactgagcaca" id="BBa_K086017" name="promoter" title="unmodified Lutz-Bujard LacO promoter"/>
| + | |
- | <label for="BBa_K086017">BBa_K086017</label>
| + | |
- | <input type="checkbox" value="BBa_K086018:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ24:ttgtgagcggataacaattctgaagaacaa" id="BBa_K086018" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ24"/>
| + | |
- | <label for="BBa_K086018">BBa_K086018</label>
| + | |
- | <input type="checkbox" value="BBa_K086019:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ24:ttgtgagcggataacaattctgataaaaca" id="BBa_K086019" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ24"/>
| + | |
- | <label for="BBa_K086019">BBa_K086019</label>
| + | |
- | <input type="checkbox" value="BBa_K086020:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ24 :ttgtgagcggataacatctaaccctttaga" id="BBa_K086020" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ24 "/>
| + | |
- | <label for="BBa_K086020">BBa_K086020</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_K086021:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ24 :ttgtgagcggataacatagcagataagaaa" id="BBa_K086021" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ24 "/>
| + | |
- | <label for="BBa_K086021">BBa_K086021</label>
| + | |
- | <input type="checkbox" value="BBa_K086022:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ28 :gtttgagcgagtaacgccgaaaatcttgca" id="BBa_K086022" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ28 "/>
| + | |
- | <label for="BBa_K086022">BBa_K086022</label>
| + | |
- | <input type="checkbox" value="BBa_K086023:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ28 :gtgtgagcgagtaacgacgaaaatcttgca" id="BBa_K086023" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ28 "/>
| + | |
- | <label for="BBa_K086023">BBa_K086023</label>
| + | |
- | <input type="checkbox" value="BBa_K086024:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ28 :tttgagcgagtaacagccgaaaatcttgca" id="BBa_K086024" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ28 "/>
| + | |
- | <label for="BBa_K086024">BBa_K086024</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_K086025:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ28 :tgtgagcgagtaacagccgaaaatcttgca" id="BBa_K086025" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ28 "/>
| + | |
- | <label for="BBa_K086025">BBa_K086025</label>
| + | |
- | <input type="checkbox" value="BBa_K086026:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ32 :ttgtgagcgagtggcaccattaagtacgta" id="BBa_K086026" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ32 "/>
| + | |
- | <label for="BBa_K086026">BBa_K086026</label>
| + | |
- | <input type="checkbox" value="BBa_K086027:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ32 :ttgtgagcgagtgacaccattaagtacgta" id="BBa_K086027" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ32 "/>
| + | |
- | <label for="BBa_K086027">BBa_K086027</label>
| + | |
- | <input type="checkbox" value="BBa_K086028:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ32 :ttgtgagcgagtaacaccattaagtacgta" id="BBa_K086028" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ32 "/>
| + | |
- | <label for="BBa_K086028">BBa_K086028</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_K086029:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ32 :ttgtgagcgagtaacaccattaagtacgta" id="BBa_K086029" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ32 "/>
| + | |
- | <label for="BBa_K086029">BBa_K086029</label>
| + | |
- | <input type="checkbox" value="BBa_K086030:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ38 :cagtgagcgagtaacaactacgctgtttta" id="BBa_K086030" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ38 "/>
| + | |
- | <label for="BBa_K086030">BBa_K086030</label>
| + | |
- | <input type="checkbox" value="BBa_K086031:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ38 :cagtgagcgagtaacaactacgctgtttta" id="BBa_K086031" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ38 "/>
| + | |
- | <label for="BBa_K086031">BBa_K086031</label>
| + | |
- | <input type="checkbox" value="BBa_K086032:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ38 :atgtgagcggataacactataattaataga" id="BBa_K086032" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ38 "/>
| + | |
- | <label for="BBa_K086032">BBa_K086032</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_K086033:modified Lutz-Bujard LacO promoter,with alternative sigma factor σ38 :atgtgagcggataacactataattaataga" id="BBa_K086033" name="promoter" title="modified Lutz-Bujard LacO promoter,with alternative sigma factor σ38 "/>
| + | |
- | <label for="BBa_K086033">BBa_K086033</label>
| + | |
- | </div>
| + | |
- | <br><div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_I712074:T7 promoter (strong promoter from T7 bacteriophage):agggaatacaagctacttgttctttttgca" id="BBa_I712074" name="promoter" title="T7 promoter (strong promoter from T7 bacteriophage)"/>
| + | |
- | <label for="BBa_I712074">BBa_I712074</label>
| + | |
- | <input type="checkbox" value="BBa_I719005:T7 Promoter:taatacgactcactatagggaga" id="BBa_I719005" name="promoter" title="T7 Promoter"/>
| + | |
- | <label for="BBa_I719005">BBa_I719005</label>
| + | |
- | <input type="checkbox" value="BBa_J34814:T7 Promoter:gaatttaatacgactcactatagggaga" id="BBa_J34814" name="promoter" title="T7 Promoter"/>
| + | |
- | <label for="BBa_J34814">BBa_J34814</label>
| + | |
- | <input type="checkbox" value="BBa_J64997:T7 consensus -10 and rest:taatacgactcactatagg" id="BBa_J64997" name="promoter" title="T7 consensus -10 and rest"/>
| + | |
- | <label for="BBa_J64997">BBa_J64997</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_J64998:consensus -10 and rest from SP6:atttaggtgacactataga" id="BBa_J64998" name="promoter" title="consensus -10 and rest from SP6"/>
| + | |
- | <label for="BBa_J64998">BBa_J64998</label>
| + | |
- | <input type="checkbox" value="BBa_K113010:overlapping T7 promoter:gagtcgtattaatacgactcactatagggg" id="BBa_K113010" name="promoter" title="overlapping T7 promoter"/>
| + | |
- | <label for="BBa_K113010">BBa_K113010</label>
| + | |
- | <input type="checkbox" value="BBa_K113011:more overlapping T7 promoter :agtgagtcgtactacgactcactatagggg" id="BBa_K113011" name="promoter" title="more overlapping T7 promoter "/>
| + | |
- | <label for="BBa_K113011">BBa_K113011</label>
| + | |
- | <input type="checkbox" value="BBa_K113012:weaken overlapping T7 promoter:gagtcgtattaatacgactctctatagggg" id="BBa_K113012" name="promoter" title="weaken overlapping T7 promoter"/>
| + | |
- | <label for="BBa_K113012">BBa_K113012</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_K525998:Promoter T7 and RBS:atacgactcactatagggaaagaggagaaa" id="BBa_K525998" name="promoter" title="Promoter T7 and RBS"/>
| + | |
- | <label for="BBa_K525998">BBa_K525998</label>
| + | |
- | <input type="checkbox" value="BBa_R0085:T7 Consensus Promoter Sequence:taatacgactcactatagggaga" id="BBa_R0085" name="promoter" title="T7 Consensus Promoter Sequence"/>
| + | |
- | <label for="BBa_R0085">BBa_R0085</label>
| + | |
- | <input type="checkbox" value="BBa_R0180:T7 RNAP promoter:ttatacgactcactatagggaga" id="BBa_R0180" name="promoter" title="T7 RNAP promoter"/>
| + | |
- | <label for="BBa_R0180">BBa_R0180</label>
| + | |
- | <input type="checkbox" value="BBa_R0181:T7 RNAP promoter:gaatacgactcactatagggaga" id="BBa_R0181" name="promoter" title="T7 RNAP promoter"/>
| + | |
- | <label for="BBa_R0181">BBa_R0181</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_R0182:T7 RNAP promoter:taatacgtctcactatagggaga" id="BBa_R0182" name="promoter" title="T7 RNAP promoter"/>
| + | |
- | <label for="BBa_R0182">BBa_R0182</label>
| + | |
- | <input type="checkbox" value="BBa_R0183:T7 RNAP promoter:tcatacgactcactatagggaga" id="BBa_R0183" name="promoter" title="T7 RNAP promoter"/>
| + | |
- | <label for="BBa_R0183">BBa_R0183</label>
| + | |
- | <input type="checkbox" value="BBa_R0184:T7 promoter (lacI repressible):ataggggaattgtgagcggataacaattcc" id="BBa_R0184" name="promoter" title="T7 promoter (lacI repressible)"/>
| + | |
- | <label for="BBa_R0184">BBa_R0184</label>
| + | |
- | <input type="checkbox" value="BBa_R0185:T7 promoter (lacI repressible):ataggggaattgtgagcggataacaattcc" id="BBa_R0185" name="promoter" title="T7 promoter (lacI repressible)"/>
| + | |
- | <label for="BBa_R0185">BBa_R0185</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_R0186:T7 promoter (lacI repressible):ataggggaattgtgagcggataacaattcc" id="BBa_R0186" name="promoter" title="T7 promoter (lacI repressible)"/>
| + | |
- | <label for="BBa_R0186">BBa_R0186</label>
| + | |
- | <input type="checkbox" value="BBa_R0187:T7 promoter (lacI repressible):ataggggaattgtgagcggataacaattcc" id="BBa_R0187" name="promoter" title="T7 promoter (lacI repressible)"/>
| + | |
- | <label for="BBa_R0187">BBa_R0187</label>
| + | |
- | <input type="checkbox" value="BBa_Z0251:T7 strong promoter:taatacgactcactatagggagaccacaac" id="BBa_Z0251" name="promoter" title="T7 strong promoter"/>
| + | |
- | <label for="BBa_Z0251">BBa_Z0251</label>
| + | |
- | <input type="checkbox" value="BBa_Z0252:T7 weak binding and processivity:taattgaactcactaaagggagaccacagc" id="BBa_Z0252" name="promoter" title="T7 weak binding and processivity"/>
| + | |
- | <label for="BBa_Z0252">BBa_Z0252</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_Z0253:T7 weak binding promoter:cgaagtaatacgactcactattagggaaga" id="BBa_Z0253" name="promoter" title="T7 weak binding promoter"/>
| + | |
- | <label for="BBa_Z0253">BBa_Z0253</label>
| + | |
- | </div>
| + | |
- | <br><div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_I721001:Lead Promoter:gaaaaccttgtcaatgaagagcgatctatg" id="BBa_I721001" name="promoter" title="Lead Promoter"/>
| + | |
- | <label for="BBa_I721001">BBa_I721001</label>
| + | |
- | <input type="checkbox" value="BBa_I731004:FecA promoter:ttctcgttcgactcatagctgaacacaaca" id="BBa_I731004" name="promoter" title="FecA promoter"/>
| + | |
- | <label for="BBa_I731004">BBa_I731004</label>
| + | |
- | <input type="checkbox" value="BBa_I760005:Cu-sensitive promoter:atgacaaaattgtcat" id="BBa_I760005" name="promoter" title="Cu-sensitive promoter"/>
| + | |
- | <label for="BBa_I760005">BBa_I760005</label>
| + | |
- | <input type="checkbox" value="BBa_I765000:Fe promoter:accaatgctgggaacggccagggcacctaa" id="BBa_I765000" name="promoter" title="Fe promoter"/>
| + | |
- | <label for="BBa_I765000">BBa_I765000</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_I765007:Fe and UV promoters:ctgaaagcgcataccgctatggagggggtt" id="BBa_I765007" name="promoter" title="Fe and UV promoters"/>
| + | |
- | <label for="BBa_I765007">BBa_I765007</label>
| + | |
- | <input type="checkbox" value="BBa_J3902:PrFe (PI + PII rus operon) :tagatatgcctgaaagcgcataccgctatg" id="BBa_J3902" name="promoter" title="PrFe (PI + PII rus operon) "/>
| + | |
- | <label for="BBa_J3902">BBa_J3902</label>
| + | |
- | </div>
| + | |
- | <br><div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_I1051:Lux cassette right promoter:tgttatagtcgaatacctctggcggtgata" id="BBa_I1051" name="promoter" title="Lux cassette right promoter"/>
| + | |
- | <label for="BBa_I1051">BBa_I1051</label>
| + | |
- | <input type="checkbox" value="BBa_I14015:P(Las) TetO:ttttggtacactccctatcagtgatagaga" id="BBa_I14015" name="promoter" title="P(Las) TetO"/>
| + | |
- | <label for="BBa_I14015">BBa_I14015</label>
| + | |
- | <input type="checkbox" value="BBa_I14016:P(Las) CIO:ctttttggtacactacctctggcggtgata" id="BBa_I14016" name="promoter" title="P(Las) CIO"/>
| + | |
- | <label for="BBa_I14016">BBa_I14016</label>
| + | |
- | <input type="checkbox" value="BBa_I14017:P(Rhl):tacgcaagaaaatggtttgttatagtcgaa" id="BBa_I14017" name="promoter" title="P(Rhl)"/>
| + | |
- | <label for="BBa_I14017">BBa_I14017</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_I739105:Double Promoter (LuxR/HSL, positive / cI, negative):cgtgcgtgttgataacaccgtgcgtgttga" id="BBa_I739105" name="promoter" title="Double Promoter (LuxR/HSL, positive / cI, negative)"/>
| + | |
- | <label for="BBa_I739105">BBa_I739105</label>
| + | |
- | <input type="checkbox" value="BBa_I746104:P2 promoter in agr operon from S. aureus:agattgtactaaatcgtataatgacagtga" id="BBa_I746104" name="promoter" title="P2 promoter in agr operon from S. aureus"/>
| + | |
- | <label for="BBa_I746104">BBa_I746104</label>
| + | |
- | <input type="checkbox" value="BBa_I751501:plux-cI hybrid promoter:gtgttgatgcttttatcaccgccagtggta" id="BBa_I751501" name="promoter" title="plux-cI hybrid promoter"/>
| + | |
- | <label for="BBa_I751501">BBa_I751501</label>
| + | |
- | <input type="checkbox" value="BBa_I751502:plux-lac hybrid promoter:agtgtgtggaattgtgagcggataacaatt" id="BBa_I751502" name="promoter" title="plux-lac hybrid promoter"/>
| + | |
- | <label for="BBa_I751502">BBa_I751502</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_I761011:CinR, CinL and glucose controlled promotor:acatcttaaaagttttagtatcatattcgt" id="BBa_I761011" name="promoter" title="CinR, CinL and glucose controlled promotor"/>
| + | |
- | <label for="BBa_I761011">BBa_I761011</label>
| + | |
- | <input type="checkbox" value="BBa_J06403:RhIR promoter repressible by CI:tacgcaagaaaatggtttgttatagtcgaa" id="BBa_J06403" name="promoter" title="RhIR promoter repressible by CI"/>
| + | |
- | <label for="BBa_J06403">BBa_J06403</label>
| + | |
- | <input type="checkbox" value="BBa_J102001:Reverse Lux Promoter:tcttgcgtaaacctgtacgatcctacaggt" id="BBa_J102001" name="promoter" title="Reverse Lux Promoter"/>
| + | |
- | <label for="BBa_J102001">BBa_J102001</label>
| + | |
- | <input type="checkbox" value="BBa_J64000:rhlI promoter:atcctcctttagtcttccccctcatgtgtg" id="BBa_J64000" name="promoter" title="rhlI promoter"/>
| + | |
- | <label for="BBa_J64000">BBa_J64000</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_J64010:lasI promoter:taaaattatgaaatttgcataaattcttca" id="BBa_J64010" name="promoter" title="lasI promoter"/>
| + | |
- | <label for="BBa_J64010">BBa_J64010</label>
| + | |
- | <input type="checkbox" value="BBa_J64067:LuxR+3OC6HSL independent R0065:gtgttgactattttacctctggcggtgata" id="BBa_J64067" name="promoter" title="LuxR+3OC6HSL independent R0065"/>
| + | |
- | <label for="BBa_J64067">BBa_J64067</label>
| + | |
- | <input type="checkbox" value="BBa_J64712:LasR/LasI Inducible & RHLR/RHLI repressible Promoter:gaaatctggcagtttttggtacacgaaagc" id="BBa_J64712" name="promoter" title="LasR/LasI Inducible & RHLR/RHLI repressible Promoter"/>
| + | |
- | <label for="BBa_J64712">BBa_J64712</label>
| + | |
- | <input type="checkbox" value="BBa_K091107:pLux/cI Hybrid Promoter:acaccgtgcgtgttgatatagtcgaataaa" id="BBa_K091107" name="promoter" title="pLux/cI Hybrid Promoter"/>
| + | |
- | <label for="BBa_K091107">BBa_K091107</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_K091117:pLas promoter:aaaattatgaaatttgtataaattcttcag" id="BBa_K091117" name="promoter" title="pLas promoter"/>
| + | |
- | <label for="BBa_K091117">BBa_K091117</label>
| + | |
- | <input type="checkbox" value="BBa_K091143:pLas/cI Hybrid Promoter:ggttctttttggtacctctggcggtgataa" id="BBa_K091143" name="promoter" title="pLas/cI Hybrid Promoter"/>
| + | |
- | <label for="BBa_K091143">BBa_K091143</label>
| + | |
- | <input type="checkbox" value="BBa_K091146:pLas/Lux Hybrid Promoter:tgtaggatcgtacaggtataaattcttcag" id="BBa_K091146" name="promoter" title="pLas/Lux Hybrid Promoter"/>
| + | |
- | <label for="BBa_K091146">BBa_K091146</label>
| + | |
- | <input type="checkbox" value="BBa_K091156:pLux:caagaaaatggtttgttatagtcgaataaa" id="BBa_K091156" name="promoter" title="pLux"/>
| + | |
- | <label for="BBa_K091156">BBa_K091156</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_K091157:pLux/Las Hybrid Promoter:ctatctcatttgctagtatagtcgaataaa" id="BBa_K091157" name="promoter" title="pLux/Las Hybrid Promoter"/>
| + | |
- | <label for="BBa_K091157">BBa_K091157</label>
| + | |
- | <input type="checkbox" value="BBa_K145150:Hybrid promoter: HSL-LuxR activated, P22 C2 repressed:tagtttataatttaagtgttctttaatttc" id="BBa_K145150" name="promoter" title="Hybrid promoter: HSL-LuxR activated, P22 C2 repressed"/>
| + | |
- | <label for="BBa_K145150">BBa_K145150</label>
| + | |
- | <input type="checkbox" value="BBa_K266000:PAI+LasR -:caccttcgggtgggcctttctgcgtttata" id="BBa_K266000" name="promoter" title="PAI+LasR -"/>
| + | |
- | <label for="BBa_K266000">BBa_K266000</label>
| + | |
- | <input type="checkbox" value="BBa_K266005:PAI+LasR -:aataactctgatagtgctagtgtagatctc" id="BBa_K266005" name="promoter" title="PAI+LasR -"/>
| + | |
- | <label for="BBa_K266005">BBa_K266005</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_K266006:PAI+LasR -:caccttcgggtgggcctttctgcgtttata" id="BBa_K266006" name="promoter" title="PAI+LasR -"/>
| + | |
- | <label for="BBa_K266006">BBa_K266006</label>
| + | |
- | <input type="checkbox" value="BBa_K266007:Complex QS -:caccttcgggtgggcctttctgcgtttata" id="BBa_K266007" name="promoter" title="Complex QS -"/>
| + | |
- | <label for="BBa_K266007">BBa_K266007</label>
| + | |
- | <input type="checkbox" value="BBa_K658006:position 3 mutated promoter lux pR-3 (luxR & HSL regulated):caagaaaatggtttgttatagtcgaataaa" id="BBa_K658006" name="promoter" title="position 3 mutated promoter lux pR-3 (luxR & HSL regulated)"/>
| + | |
- | <label for="BBa_K658006">BBa_K658006</label>
| + | |
- | <input type="checkbox" value="BBa_K658007:position 5 mutated promoter lux pR-5 (luxR & HSL regulated) :caagaaaatggtttgttatagtcgaataaa" id="BBa_K658007" name="promoter" title="position 5 mutated promoter lux pR-5 (luxR & HSL regulated) "/>
| + | |
- | <label for="BBa_K658007">BBa_K658007</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_K658008:position 3&5 mutated promoter lux pR-3/5 (luxR & HSL regulated):caagaaaatggtttgttatagtcgaataaa" id="BBa_K658008" name="promoter" title="position 3&5 mutated promoter lux pR-3/5 (luxR & HSL regulated)"/>
| + | |
- | <label for="BBa_K658008">BBa_K658008</label>
| + | |
- | <input type="checkbox" value="BBa_R0061:Promoter (HSL-mediated luxR repressor):ttgacacctgtaggatcgtacaggtataat" id="BBa_R0061" name="promoter" title="Promoter (HSL-mediated luxR repressor)"/>
| + | |
- | <label for="BBa_R0061">BBa_R0061</label>
| + | |
- | <input type="checkbox" value="BBa_R0062:Promoter (luxR & HSL regulated -- lux pR):caagaaaatggtttgttatagtcgaataaa" id="BBa_R0062" name="promoter" title="Promoter (luxR & HSL regulated -- lux pR)"/>
| + | |
- | <label for="BBa_R0062">BBa_R0062</label>
| + | |
- | <input type="checkbox" value="BBa_R0063:Promoter (luxR & HSL regulated -- lux pL):cacgcaaaacttgcgacaaacaataggtaa" id="BBa_R0063" name="promoter" title="Promoter (luxR & HSL regulated -- lux pL)"/>
| + | |
- | <label for="BBa_R0063">BBa_R0063</label>
| + | |
- | </div>
| + | |
- | <div class="form-checkbox">
| + | |
- | <input type="checkbox" value="BBa_R0071:Promoter (RhlR & C4-HSL regulated):gttagctttcgaattggctaaaaagtgttc" id="BBa_R0071" name="promoter" title="Promoter (RhlR & C4-HSL regulated)"/>
| + | |
- | <label for="BBa_R0071">BBa_R0071</label>
| + | |
- | <input type="checkbox" value="BBa_R0078:Promoter (cinR and HSL regulated):ccattctgctttccacgaacttgaaaacgc" id="BBa_R0078" name="promoter" title="Promoter (cinR and HSL regulated)"/>
| + | |
- | <label for="BBa_R0078">BBa_R0078</label>
| + | |
- | <input type="checkbox" value="BBa_R0079:Promoter (LasR & PAI regulated):ggccgcgggttctttttggtacacgaaagc" id="BBa_R0079" name="promoter" title="Promoter (LasR & PAI regulated)"/>
| + | |
- | <label for="BBa_R0079">BBa_R0079</label>
| + | |
- | <input type="checkbox" value="BBa_R1062:Promoter, Standard (luxR and HSL regulated -- lux pR):aagaaaatggtttgttgatactcgaataaa" id="BBa_R1062" name="promoter" title="Promoter, Standard (luxR and HSL regulated -- lux pR)"/>
| + | |
- | <label for="BBa_R1062">BBa_R1062</label>
| + | |
- | </div>
| + | |
- | <br>
| + | |
- | <br>
| + | |
- | <br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br>
| + | |
- | <input type=BUTTON value="Submit" name="mySubmit" onClick="setup()"></form>
| + | |
- | </p>
| + | |
- | <div id="visualizationButtons"></div>
| + | |
- | <div id="readout"></div>
| + | |
- | <div id="infovis"></div>
| + | |
- | <div id="inner-details"></div>
| + | |
- | </body>
| + | |
| </html> | | </html> |
| + | {{Team:Amsterdam/Foot}} |