Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene007983.t1 | XP_003601024.1 | 93 | 284 | 9 | 1 | 1 | 284 | 1 | 273 | 4.30E-146 | 527.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene007983.t1 | Q9LYL9 | 47.3 | 275 | 143 | 2 | 1 | 275 | 1 | 273 | 1.3e-66 | 254.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene007983.t1 | G7J2Y2 | 93.0 | 284 | 9 | 1 | 1 | 284 | 1 | 273 | 3.1e-146 | 527.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene007983.t1 | TR | TRAF |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene007983.t1 | MTR_3g072160 | 92.958 | 284 | 9 | 1 | 1 | 284 | 1 | 273 | 0.0 | 546 |
| MS.gene007983.t1 | MTR_3g072160 | 95.413 | 218 | 10 | 0 | 67 | 284 | 19 | 236 | 1.13e-146 | 410 |
| MS.gene007983.t1 | MTR_3g088660 | 26.699 | 206 | 142 | 4 | 69 | 269 | 35 | 236 | 7.40e-19 | 84.0 |
| MS.gene007983.t1 | MTR_5g096700 | 32.484 | 157 | 102 | 3 | 88 | 244 | 83 | 235 | 1.30e-15 | 75.5 |
| MS.gene007983.t1 | MTR_5g096700 | 32.484 | 157 | 102 | 3 | 88 | 244 | 142 | 294 | 2.32e-15 | 75.5 |
| MS.gene007983.t1 | MTR_3g061090 | 32.143 | 168 | 106 | 4 | 77 | 244 | 62 | 221 | 2.80e-14 | 71.2 |
| MS.gene007983.t1 | MTR_3g061090 | 32.143 | 168 | 106 | 4 | 77 | 244 | 134 | 293 | 1.01e-13 | 70.5 |
| MS.gene007983.t1 | MTR_1g029850 | 33.103 | 145 | 92 | 3 | 98 | 242 | 152 | 291 | 8.24e-11 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene007983.t1 | AT3G56230 | 47.273 | 275 | 143 | 2 | 1 | 275 | 1 | 273 | 1.36e-85 | 258 |
| MS.gene007983.t1 | AT1G01640 | 46.632 | 193 | 97 | 4 | 88 | 279 | 1 | 188 | 1.66e-54 | 176 |
| MS.gene007983.t1 | AT1G01640 | 47.093 | 172 | 85 | 4 | 109 | 279 | 1 | 167 | 3.11e-47 | 156 |
| MS.gene007983.t1 | AT2G40450 | 39.444 | 180 | 104 | 3 | 96 | 270 | 9 | 188 | 2.53e-26 | 103 |
| MS.gene007983.t1 | AT5G48510 | 36.111 | 180 | 111 | 3 | 100 | 275 | 13 | 192 | 3.57e-25 | 100 |
| MS.gene007983.t1 | AT4G04090 | 32.386 | 176 | 117 | 2 | 101 | 274 | 14 | 189 | 1.80e-24 | 97.8 |
| MS.gene007983.t1 | AT2G05330 | 36.364 | 143 | 89 | 2 | 130 | 270 | 34 | 176 | 3.51e-21 | 89.7 |
| MS.gene007983.t1 | AT4G08455 | 32.716 | 162 | 102 | 5 | 111 | 269 | 91 | 248 | 3.22e-19 | 85.5 |
| MS.gene007983.t1 | AT2G05330 | 36.364 | 132 | 82 | 2 | 141 | 270 | 1 | 132 | 1.96e-17 | 78.2 |
| MS.gene007983.t1 | AT3G29740 | 41.860 | 86 | 46 | 2 | 89 | 171 | 3 | 87 | 9.64e-13 | 63.2 |
| MS.gene007983.t1 | AT1G21780 | 34.058 | 138 | 86 | 3 | 105 | 242 | 155 | 287 | 1.87e-12 | 67.0 |
| MS.gene007983.t1 | AT1G21780 | 34.058 | 138 | 86 | 3 | 105 | 242 | 155 | 287 | 1.87e-12 | 67.0 |
| MS.gene007983.t1 | AT1G55760 | 33.333 | 138 | 87 | 3 | 107 | 244 | 160 | 292 | 9.98e-11 | 62.0 |
Find 44 sgRNAs with CRISPR-Local
Find 62 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTGGAGGTCTTAATATTAA+TGG | 0.173482 | 3.3:+62636920 | None:intergenic |
| TTATAGAGAAATTGATAATT+TGG | 0.186682 | 3.3:+62635656 | None:intergenic |
| TGCACAAAAGCTTCAAATTT+AGG | 0.202933 | 3.3:+62635732 | None:intergenic |
| ATTCTAGTTCTTCATGGTTT+AGG | 0.258680 | 3.3:+62636009 | None:intergenic |
| TAGTGTCTCAAATGCATTAG+AGG | 0.315759 | 3.3:+62635842 | None:intergenic |
| CTCGAATTTCGCCGCGAAAT+AGG | 0.318434 | 3.3:+62636791 | None:intergenic |
| AGGATGTCTCCTTCAAATCT+TGG | 0.335688 | 3.3:+62635796 | None:intergenic |
| GGAGAGATTCTAGTTCTTCA+TGG | 0.351873 | 3.3:+62636003 | None:intergenic |
| ACCTGCACATAAATCCGTTT+TGG | 0.358823 | 3.3:-62636500 | MS.gene007983:intron |
| TTACAGTGGGACATTGCCTT+TGG | 0.363490 | 3.3:-62635970 | MS.gene007983:CDS |
| GCCCCACATATTGTATTCCT+TGG | 0.412240 | 3.3:+62636902 | None:intergenic |
| AGTTCTTCATGGTTTAGGTC+AGG | 0.422615 | 3.3:+62636014 | None:intergenic |
| ACGGATTTATGTGCAGGTAT+AGG | 0.430061 | 3.3:+62636505 | None:intergenic |
| GGGCATGTTATGAAGGAGTT+AGG | 0.432141 | 3.3:-62636883 | MS.gene007983:CDS |
| TGTGTGAATTTGTTCTTTGA+AGG | 0.437509 | 3.3:+62636561 | None:intergenic |
| GTTTCAAGAGCATTTGTGAA+TGG | 0.440008 | 3.3:-62635681 | MS.gene007983:CDS |
| TTGTTCAAACCAAGATTTGA+AGG | 0.441270 | 3.3:-62635805 | MS.gene007983:CDS |
| TCCTGGAGTTTCTTTACAGT+GGG | 0.444038 | 3.3:-62635983 | MS.gene007983:CDS |
| CCACATATTGTATTCCTTGG+AGG | 0.461630 | 3.3:+62636905 | None:intergenic |
| AAAACAATCACTACTCCAAA+TGG | 0.473612 | 3.3:-62636818 | MS.gene007983:CDS |
| TTCGCGGCGAAATTCGAGTA+AGG | 0.516513 | 3.3:-62636786 | MS.gene007983:CDS |
| ATAGGTGGACCATGATTGCC+TGG | 0.517957 | 3.3:+62636523 | None:intergenic |
| ATAGTTATTGTGTTACAAGT+TGG | 0.522203 | 3.3:+62636038 | None:intergenic |
| CTCCTGGAGTTTCTTTACAG+TGG | 0.523154 | 3.3:-62635984 | MS.gene007983:CDS |
| CCTCCAAGGAATACAATATG+TGG | 0.523672 | 3.3:-62636905 | MS.gene007983:CDS |
| ACCAAAACGGATTTATGTGC+AGG | 0.533046 | 3.3:+62636499 | None:intergenic |
| ATATGTGGGGCATGTTATGA+AGG | 0.533797 | 3.3:-62636890 | MS.gene007983:CDS |
| TCACAGTATTTCAGCAAATG+TGG | 0.541324 | 3.3:+62635891 | None:intergenic |
| TTGATAAGTCCAGGCAATCA+TGG | 0.543484 | 3.3:-62636532 | MS.gene007983:CDS |
| CGCGAAATAGGAGAACCATT+TGG | 0.543566 | 3.3:+62636803 | None:intergenic |
| CAAGATTTGGCTTATCTCAG+AGG | 0.546377 | 3.3:-62636595 | MS.gene007983:CDS |
| CAAATGGTTCTCCTATTTCG+CGG | 0.549333 | 3.3:-62636802 | MS.gene007983:CDS |
| TGAAGAACTAGAATCTCTCC+TGG | 0.552448 | 3.3:-62636000 | MS.gene007983:CDS |
| AAAACAAGAACTCACCAAAA+CGG | 0.553720 | 3.3:+62636486 | None:intergenic |
| ACAGATATATTGATAAGTCC+AGG | 0.558976 | 3.3:-62636541 | MS.gene007983:CDS |
| CTCCAAGGAATACAATATGT+GGG | 0.586870 | 3.3:-62636904 | MS.gene007983:CDS |
| CTTATCAGCTGCTTGTGACA+AGG | 0.589102 | 3.3:+62635923 | None:intergenic |
| GATTTATGTGCAGGTATAGG+TGG | 0.598343 | 3.3:+62636508 | None:intergenic |
| TCCCACTGTAAAGAAACTCC+AGG | 0.600648 | 3.3:+62635982 | None:intergenic |
| ACTAATTGCACAGTTAAATG+TGG | 0.601341 | 3.3:+62635702 | None:intergenic |
| CACTTGATGATTGCATAAGA+TGG | 0.603274 | 3.3:-62636654 | MS.gene007983:CDS |
| AGCATGATCAACATGATGAA+CGG | 0.624401 | 3.3:-62636860 | MS.gene007983:CDS |
| CATTAATATTAAGACCTCCA+AGG | 0.644737 | 3.3:-62636919 | MS.gene007983:CDS |
| TCCAAGGAATACAATATGTG+GGG | 0.668052 | 3.3:-62636903 | MS.gene007983:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATTTTAAAGATTAAAGAA+TGG | + | chr3.3:62636166-62636185 | None:intergenic | 10.0% |
| !!! | AGATAAAATAAAGTATTTTT+TGG | - | chr3.3:62636256-62636275 | MS.gene007983:intron | 10.0% |
| !!! | ATTTTTAACTAAGAAATTAA+AGG | + | chr3.3:62636830-62636849 | None:intergenic | 10.0% |
| !! | AAAATCTTAAAAAAATAAGC+TGG | - | chr3.3:62636376-62636395 | MS.gene007983:intron | 15.0% |
| !! | GTTAATGAAAATTATTTAGT+GGG | + | chr3.3:62636144-62636163 | None:intergenic | 15.0% |
| !!! | TAAAATAAAGTATTTTTTGG+CGG | - | chr3.3:62636259-62636278 | MS.gene007983:intron | 15.0% |
| !!! | TTATAGAGAAATTGATAATT+TGG | + | chr3.3:62636950-62636969 | None:intergenic | 15.0% |
| !! | AGTTAAAAATATTGAGCATA+TGG | - | chr3.3:62636840-62636859 | MS.gene007983:CDS | 20.0% |
| !! | GGTTAATGAAAATTATTTAG+TGG | + | chr3.3:62636145-62636164 | None:intergenic | 20.0% |
| !! | TAATCAACAAAAACAAGATT+TGG | - | chr3.3:62635995-62636014 | MS.gene007983:CDS | 20.0% |
| !! | TACTTATGTTATTGTAATGT+AGG | - | chr3.3:62636486-62636505 | MS.gene007983:intron | 20.0% |
| !!! | CTTGTTTTTGTTGATTAAAT+TGG | + | chr3.3:62635992-62636011 | None:intergenic | 20.0% |
| !!! | TTCTTTTCATAATTCTTCTA+TGG | - | chr3.3:62635850-62635869 | MS.gene007983:CDS | 20.0% |
| ! | ATAGTTATTGTGTTACAAGT+TGG | + | chr3.3:62636568-62636587 | None:intergenic | 25.0% |
| ! | TCAAGTGTATAATCTAAAAG+AGG | - | chr3.3:62635896-62635915 | MS.gene007983:CDS | 25.0% |
| !! | TGTTTTTCCAATTTTTCCAA+AGG | + | chr3.3:62636652-62636671 | None:intergenic | 25.0% |
| AAAACAAGAACTCACCAAAA+CGG | + | chr3.3:62636120-62636139 | None:intergenic | 30.0% | |
| AAAACAATCACTACTCCAAA+TGG | - | chr3.3:62635785-62635804 | MS.gene007983:CDS | 30.0% | |
| ACAGATATATTGATAAGTCC+AGG | - | chr3.3:62636062-62636081 | MS.gene007983:CDS | 30.0% | |
| ACTAATTGCACAGTTAAATG+TGG | + | chr3.3:62636904-62636923 | None:intergenic | 30.0% | |
| CATTAATATTAAGACCTCCA+AGG | - | chr3.3:62635684-62635703 | MS.gene007983:CDS | 30.0% | |
| CTTGGAGGTCTTAATATTAA+TGG | + | chr3.3:62635686-62635705 | None:intergenic | 30.0% | |
| TGCACAAAAGCTTCAAATTT+AGG | + | chr3.3:62636874-62636893 | None:intergenic | 30.0% | |
| TTGTTCAAACCAAGATTTGA+AGG | - | chr3.3:62636798-62636817 | MS.gene007983:CDS | 30.0% | |
| ! | TGTGTGAATTTGTTCTTTGA+AGG | + | chr3.3:62636045-62636064 | None:intergenic | 30.0% |
| !! | AATTTGAAGCTTTTGTGCAT+AGG | - | chr3.3:62636875-62636894 | MS.gene007983:CDS | 30.0% |
| !! | ATTCTAGTTCTTCATGGTTT+AGG | + | chr3.3:62636597-62636616 | None:intergenic | 30.0% |
| AGCATGATCAACATGATGAA+CGG | - | chr3.3:62635743-62635762 | MS.gene007983:CDS | 35.0% | |
| CTCCAAGGAATACAATATGT+GGG | - | chr3.3:62635699-62635718 | MS.gene007983:CDS | 35.0% | |
| TAGTGTCTCAAATGCATTAG+AGG | + | chr3.3:62636764-62636783 | None:intergenic | 35.0% | |
| TCACAGTATTTCAGCAAATG+TGG | + | chr3.3:62636715-62636734 | None:intergenic | 35.0% | |
| TCCAAGGAATACAATATGTG+GGG | - | chr3.3:62635700-62635719 | MS.gene007983:CDS | 35.0% | |
| TTCTGTCTCATGATTGATCT+CGG | - | chr3.3:62636283-62636302 | MS.gene007983:intron | 35.0% | |
| ! | CACTTGATGATTGCATAAGA+TGG | - | chr3.3:62635949-62635968 | MS.gene007983:CDS | 35.0% |
| ! | GACATTGCCTTTGGAAAAAT+TGG | - | chr3.3:62636642-62636661 | MS.gene007983:CDS | 35.0% |
| !! | GTTTCAAGAGCATTTGTGAA+TGG | - | chr3.3:62636922-62636941 | MS.gene007983:CDS | 35.0% |
| ACGGATTTATGTGCAGGTAT+AGG | + | chr3.3:62636101-62636120 | None:intergenic | 40.0% | |
| AGGATGTCTCCTTCAAATCT+TGG | + | chr3.3:62636810-62636829 | None:intergenic | 40.0% | |
| AGTTCTTCATGGTTTAGGTC+AGG | + | chr3.3:62636592-62636611 | None:intergenic | 40.0% | |
| ATATGTGGGGCATGTTATGA+AGG | - | chr3.3:62635713-62635732 | MS.gene007983:CDS | 40.0% | |
| CAAATGGTTCTCCTATTTCG+CGG | - | chr3.3:62635801-62635820 | MS.gene007983:CDS | 40.0% | |
| CCACATATTGTATTCCTTGG+AGG | + | chr3.3:62635701-62635720 | None:intergenic | 40.0% | |
| CCTCCAAGGAATACAATATG+TGG | - | chr3.3:62635698-62635717 | MS.gene007983:CDS | 40.0% | |
| GATTTATGTGCAGGTATAGG+TGG | + | chr3.3:62636098-62636117 | None:intergenic | 40.0% | |
| TCCTGGAGTTTCTTTACAGT+GGG | - | chr3.3:62636620-62636639 | MS.gene007983:CDS | 40.0% | |
| TGAAGAACTAGAATCTCTCC+TGG | - | chr3.3:62636603-62636622 | MS.gene007983:CDS | 40.0% | |
| TTGATAAGTCCAGGCAATCA+TGG | - | chr3.3:62636071-62636090 | MS.gene007983:CDS | 40.0% | |
| ! | ACCAAAACGGATTTATGTGC+AGG | + | chr3.3:62636107-62636126 | None:intergenic | 40.0% |
| ! | ACCTGCACATAAATCCGTTT+TGG | - | chr3.3:62636103-62636122 | MS.gene007983:intron | 40.0% |
| ! | CAAGATTTGGCTTATCTCAG+AGG | - | chr3.3:62636008-62636027 | MS.gene007983:CDS | 40.0% |
| !! | GGAGAGATTCTAGTTCTTCA+TGG | + | chr3.3:62636603-62636622 | None:intergenic | 40.0% |
| CAATCATCAAGTGTCTGCAG+TGG | + | chr3.3:62635942-62635961 | None:intergenic | 45.0% | |
| CGCGAAATAGGAGAACCATT+TGG | + | chr3.3:62635803-62635822 | None:intergenic | 45.0% | |
| CTCCTGGAGTTTCTTTACAG+TGG | - | chr3.3:62636619-62636638 | MS.gene007983:CDS | 45.0% | |
| CTTATCAGCTGCTTGTGACA+AGG | + | chr3.3:62636683-62636702 | None:intergenic | 45.0% | |
| GCCCCACATATTGTATTCCT+TGG | + | chr3.3:62635704-62635723 | None:intergenic | 45.0% | |
| GGGCATGTTATGAAGGAGTT+AGG | - | chr3.3:62635720-62635739 | MS.gene007983:CDS | 45.0% | |
| TCCCACTGTAAAGAAACTCC+AGG | + | chr3.3:62636624-62636643 | None:intergenic | 45.0% | |
| TTACAGTGGGACATTGCCTT+TGG | - | chr3.3:62636633-62636652 | MS.gene007983:CDS | 45.0% | |
| ATAGGTGGACCATGATTGCC+TGG | + | chr3.3:62636083-62636102 | None:intergenic | 50.0% | |
| CTCGAATTTCGCCGCGAAAT+AGG | + | chr3.3:62635815-62635834 | None:intergenic | 50.0% | |
| TTCGCGGCGAAATTCGAGTA+AGG | - | chr3.3:62635817-62635836 | MS.gene007983:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 62635656 | 62636969 | 62635656 | ID=MS.gene007983 |
| chr3.3 | mRNA | 62635656 | 62636969 | 62635656 | ID=MS.gene007983.t1;Parent=MS.gene007983 |
| chr3.3 | exon | 62636754 | 62636969 | 62636754 | ID=MS.gene007983.t1.exon1;Parent=MS.gene007983.t1 |
| chr3.3 | CDS | 62636754 | 62636969 | 62636754 | ID=cds.MS.gene007983.t1;Parent=MS.gene007983.t1 |
| chr3.3 | exon | 62636501 | 62636677 | 62636501 | ID=MS.gene007983.t1.exon2;Parent=MS.gene007983.t1 |
| chr3.3 | CDS | 62636501 | 62636677 | 62636501 | ID=cds.MS.gene007983.t1;Parent=MS.gene007983.t1 |
| chr3.3 | exon | 62635656 | 62636117 | 62635656 | ID=MS.gene007983.t1.exon3;Parent=MS.gene007983.t1 |
| chr3.3 | CDS | 62635656 | 62636117 | 62635656 | ID=cds.MS.gene007983.t1;Parent=MS.gene007983.t1 |
| Gene Sequence |
| Protein sequence |
