Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1232860 | XP_013444323.1 | 92.833 | 586 | 8 | 1 | 1 | 552 | 1 | 586 | 0.0 | 1107 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1232860 | sp|Q9S746|HTH_ARATH | 65.536 | 560 | 154 | 4 | 31 | 552 | 36 | 594 | 0.0 | 713 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1232860 | A0A072TXW2 | 92.833 | 586 | 8 | 1 | 1 | 552 | 1 | 586 | 0.0 | 1107 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa1232860 | 0.823339 | 1.460721e-53 | -8.615850e-47 |
| Msa0001460 | Msa1232860 | 0.816097 | 6.591421e-52 | -8.615850e-47 |
| Msa0003470 | Msa1232860 | 0.867091 | 1.766234e-65 | -8.615850e-47 |
| Msa0003490 | Msa1232860 | 0.805783 | 1.130003e-49 | -8.615850e-47 |
| Msa0004350 | Msa1232860 | 0.845026 | 5.247571e-59 | -8.615850e-47 |
| Msa0006870 | Msa1232860 | 0.818609 | 1.792948e-52 | -8.615850e-47 |
| Msa0007230 | Msa1232860 | 0.815783 | 7.746710e-52 | -8.615850e-47 |
| Msa0007450 | Msa1232860 | 0.827108 | 1.876736e-54 | -8.615850e-47 |
| Msa0008330 | Msa1232860 | 0.833090 | 6.513076e-56 | -8.615850e-47 |
| Msa0008850 | Msa1232860 | 0.801860 | 7.376588e-49 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1232860 | MtrunA17_Chr8g0342061 | 92.833 | 586 | 8 | 1 | 1 | 552 | 1 | 586 | 0.0 | 1107 |
| Msa1232860 | MtrunA17_Chr2g0330251 | 73.277 | 595 | 115 | 5 | 1 | 552 | 1 | 594 | 0.0 | 884 |
| Msa1232860 | MtrunA17_Chr5g0398121 | 52.205 | 567 | 216 | 8 | 23 | 546 | 20 | 574 | 0.0 | 555 |
| Msa1232860 | MtrunA17_Chr1g0203971 | 49.540 | 543 | 225 | 8 | 32 | 536 | 2 | 533 | 4.15e-172 | 497 |
| Msa1232860 | MtrunA17_Chr5g0398141 | 54.034 | 409 | 181 | 3 | 143 | 547 | 35 | 440 | 5.45e-153 | 445 |
| Msa1232860 | MtrunA17_Chr5g0417511 | 37.351 | 589 | 247 | 12 | 7 | 545 | 15 | 531 | 3.70e-110 | 339 |
| Msa1232860 | MtrunA17_Chr4g0000501 | 41.368 | 307 | 139 | 5 | 246 | 548 | 7 | 276 | 1.87e-64 | 212 |
| Msa1232860 | MtrunA17_Chr5g0398131 | 69.792 | 96 | 29 | 0 | 55 | 150 | 13 | 108 | 7.71e-40 | 140 |
| Msa1232860 | MtrunA17_Chr4g0000491 | 46.552 | 174 | 51 | 2 | 55 | 186 | 54 | 227 | 1.88e-37 | 139 |
| Msa1232860 | MtrunA17_Chr1g0203951 | 58.197 | 122 | 39 | 3 | 31 | 152 | 7 | 116 | 6.81e-37 | 134 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1232860 | AT1G72970.1 | 65.536 | 560 | 154 | 4 | 31 | 552 | 36 | 594 | 0.0 | 713 |
| Msa1232860 | AT1G72970.2 | 62.857 | 560 | 142 | 5 | 31 | 552 | 36 | 567 | 0.0 | 669 |
| Msa1232860 | AT1G12570.1 | 49.483 | 580 | 230 | 11 | 15 | 546 | 5 | 569 | 3.60e-178 | 514 |
| Msa1232860 | AT3G56060.1 | 49.097 | 554 | 229 | 8 | 32 | 547 | 31 | 569 | 9.30e-172 | 498 |
| Msa1232860 | AT5G51950.2 | 50.282 | 531 | 222 | 7 | 55 | 545 | 13 | 541 | 8.16e-171 | 495 |
| Msa1232860 | AT5G51950.3 | 47.931 | 580 | 244 | 11 | 14 | 545 | 5 | 574 | 1.07e-170 | 496 |
| Msa1232860 | AT5G51950.1 | 47.332 | 581 | 248 | 9 | 14 | 545 | 5 | 576 | 1.93e-170 | 495 |
| Msa1232860 | AT5G51930.2 | 48.381 | 556 | 230 | 10 | 29 | 545 | 8 | 545 | 3.33e-167 | 486 |
| Msa1232860 | AT5G51930.1 | 48.059 | 541 | 232 | 8 | 34 | 535 | 52 | 582 | 3.15e-161 | 472 |
| Msa1232860 | AT1G73050.1 | 42.599 | 554 | 234 | 12 | 34 | 546 | 41 | 551 | 1.16e-132 | 397 |
Find 137 sgRNAs with CRISPR-Local
Find 382 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAGTTGGATGTAGAAT+TGG | 0.351762 | 8_2:-9460502 | Msa1232860:three_prime_UTR |
| AAAATAACCCCTATAGCTTT+TGG | 0.265030 | 8_2:+9462080 | None:intergenic |
| AAAGGTCTGCCAAGGTAATG+TGG | 0.593850 | 8_2:+9466231 | None:intergenic |
| AAATATTGGGACGCTGAAGT+TGG | 0.513818 | 8_2:+9466206 | None:intergenic |
| AAATGAATTTAGTTTATTCT+TGG | 0.310448 | 8_2:-9460479 | Msa1232860:three_prime_UTR |
| AACCAATAAGTGTCTGCCTC+TGG | 0.473502 | 8_2:+9467353 | None:intergenic |
| AACCAGAGGCAGACACTTAT+TGG | 0.282197 | 8_2:-9467355 | Msa1232860:five_prime_UTR |
| AACTTTCTACCTCATTGTCA+AGG | 0.552525 | 8_2:-9467213 | Msa1232860:intron |
| AAGAATGAACCTTGACAATG+AGG | 0.604252 | 8_2:+9467204 | None:intergenic |
| AAGACACTGTTATCACAATT+TGG | 0.265270 | 8_2:-9461009 | Msa1232860:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TATGCTTAATTCTATGGCTA+TGG | - | chr8_2:9460372-9460391 | Msa1232860:three_prime_UTR | 30.0% | |
| ATATAGAGAGAAAGAGTCTT+TGG | - | chr8_2:9460725-9460744 | Msa1232860:intron | 30.0% | |
| AGTGTATTAGTACTTGAAAG+AGG | - | chr8_2:9461315-9461334 | Msa1232860:CDS | 30.0% | |
| AAAATTTCTTAGACACCCAA+AGG | - | chr8_2:9461644-9461663 | Msa1232860:intron | 30.0% | |
| GAAATAAAAAGTTGCTTGCA+TGG | - | chr8_2:9462227-9462246 | Msa1232860:intron | 30.0% | |
| ATGGGAAGAAAATAAAACTG+TGG | - | chr8_2:9462246-9462265 | Msa1232860:intron | 30.0% | |
| AGAAGAAAGCCAAATACTAA+CGG | + | chr8_2:9462641-9462660 | None:intergenic | 30.0% | |
| CATAAATGTCACCAATACAA+GGG | + | chr8_2:9462967-9462986 | None:intergenic | 30.0% | |
| ACATAAATGTCACCAATACA+AGG | + | chr8_2:9462968-9462987 | None:intergenic | 30.0% | |
| ATGTTTGCACATTTCTTAGA+CGG | - | chr8_2:9462984-9463003 | Msa1232860:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 9460218 | 9467418 | 9460218 | ID=Msa1232860;Name=Msa1232860 |
| chr8_2 | mRNA | 9460218 | 9467418 | 9460218 | ID=Msa1232860-mRNA-1;Parent=Msa1232860;Name=Msa1232860-mRNA-1;_AED=0.05;_eAED=0.05;_QI=123|0.8|0.83|1|1|1|6|409|552 |
| chr8_2 | exon | 9460218 | 9460681 | 9460218 | ID=Msa1232860-mRNA-1:exon:3743;Parent=Msa1232860-mRNA-1 |
| chr8_2 | exon | 9460863 | 9461431 | 9460863 | ID=Msa1232860-mRNA-1:exon:3742;Parent=Msa1232860-mRNA-1 |
| chr8_2 | exon | 9461725 | 9462110 | 9461725 | ID=Msa1232860-mRNA-1:exon:3741;Parent=Msa1232860-mRNA-1 |
| chr8_2 | exon | 9462413 | 9462621 | 9462413 | ID=Msa1232860-mRNA-1:exon:3740;Parent=Msa1232860-mRNA-1 |
| chr8_2 | exon | 9466113 | 9466470 | 9466113 | ID=Msa1232860-mRNA-1:exon:3739;Parent=Msa1232860-mRNA-1 |
| chr8_2 | exon | 9467214 | 9467418 | 9467214 | ID=Msa1232860-mRNA-1:exon:3738;Parent=Msa1232860-mRNA-1 |
| chr8_2 | five_prime_UTR | 9467296 | 9467418 | 9467296 | ID=Msa1232860-mRNA-1:five_prime_utr;Parent=Msa1232860-mRNA-1 |
| chr8_2 | CDS | 9467214 | 9467295 | 9467214 | ID=Msa1232860-mRNA-1:cds;Parent=Msa1232860-mRNA-1 |
| chr8_2 | CDS | 9466113 | 9466470 | 9466113 | ID=Msa1232860-mRNA-1:cds;Parent=Msa1232860-mRNA-1 |
| chr8_2 | CDS | 9462413 | 9462621 | 9462413 | ID=Msa1232860-mRNA-1:cds;Parent=Msa1232860-mRNA-1 |
| chr8_2 | CDS | 9461725 | 9462110 | 9461725 | ID=Msa1232860-mRNA-1:cds;Parent=Msa1232860-mRNA-1 |
| chr8_2 | CDS | 9460863 | 9461431 | 9460863 | ID=Msa1232860-mRNA-1:cds;Parent=Msa1232860-mRNA-1 |
| chr8_2 | CDS | 9460627 | 9460681 | 9460627 | ID=Msa1232860-mRNA-1:cds;Parent=Msa1232860-mRNA-1 |
| chr8_2 | three_prime_UTR | 9460218 | 9460626 | 9460218 | ID=Msa1232860-mRNA-1:three_prime_utr;Parent=Msa1232860-mRNA-1 |
| Gene Sequence |
>Msa1232860 ATGGCTTCAGTTGGTACAGTCAAATTCTTGTTATGCTTAATTCTATGGCTATGGAACTGCAACTTTCTACCTCATTGTCAAGGTAAACAAGAGTACCCATTTATTAAAAAAGCAAGTACATTTTCATCACCATCAATTTCAACTACATCAATCAACAAAGCTTATGATTACATAATAGTGGGAGGTGGAACTGCAGGGTGTCCTTTAGCTGCAACATTATCTCAAAACTTCAGTGTATTAGTACTTGAAAGAGGTGGTGTTCCTTTCACTAATCCAAATGTAACATTTCTTCAGAACTTCCACATTACCTTGGCAGACCTTTCACCAACTTCAGCGTCCCAATATTTTGTTTCAACTGATGGAGTTTTCAATGCAAGGGGAAGAGTTTTAGGTGGAGGTAGTTCTATCAATGCTGGTTTCTATACTAGAGCAAGCTCAAGAGCAGTTAGGGATAGCCTTATAGACAATGGAGTCTCTCCTTTTAATGGTTTCACCTATGATCATATATATGGAACAAAAGTTGGTGGAACCATTTTTGACAGATTTGGTCGCCGACATACAGCTGCCGAACTTCTTGCTTCTGGAAACCCTGACAAACTGACTGTTTTGGTTCATGCTACTGTCCAAAAGATTGTTTTTGATACAACAGGTAAAAGACCAAAAGCTATAGGGGTTATTTTCAATGATGAAAATGGGAAACAACATGAGGCAAGGTTGGTAAATGATATGCAAAGTGAAGTGATATTGTCTAGTGGGGCAATTGGGTCTCCTCAAATGCTATTGCTAAGTGGAATTGGTCCTAAAGTTGAACTTCAGAACTTGAACATCTCAGTGGTCCTTAATAATCCTTTTGTTGGGAAGGGAATGATAGATAATCCTATGAACACAGTTTTTGTTCCTTCTAATAGGCCAGTTCATCAGTCACTCATACAAACTGTAGGTATCACCAAGAAAGGTATATACATTGAGGCTAGTAGTGGATTTAGTCAGTCCAACAGCAGCATTCACTGCCATCATGGTATCATGTCACCTGAGATCGGACAACTTCACACAATTCCTCCCAAGCAAAGATCAATAGAAGCTATTGAAGCTTACAAGAGGAATAAGCGAGACATACCGGTTGAAGCATTCAAGGGAGGCTTTGTCTTGTCCAAAGTTGGCAGTGCTTGGTCAGCAGGCGAGCTCAAGTTGGTCAACACCAACGTGAATGACAATCCTGCTGTTACCTTCAACTACTTCAGTCATCCATACGATCTAAAGCGCTGCGTCGAAGGGATCAGCATGGCGATTAAAGTAGTCCAGTCCGAACACTTCACAAACTACACATTATGTAAAAGAGAAACCGCAGAGAGACTTCTTAACCTTAGTGTGAAGACTACTGTCAACTTCATACCAAAACATGCCAATGACACAACTTCCCTAGAGCAATTCTGCAAAGACACTGTTATCACAATTTGGCATTACCATGGTGGATGTCATGTGGGGAAGGTAGTTAGTCCTGATTATAAGGTTCTTGATGTTGACAGACTCCGAGTCGTCGATGGTTCAACGTTTACTGAATCACCAGGAACAAATCCTCAAGCCACTGTGATGATGATGGGAAGGTACATGGGAGTGAAGATTTTGAGAGATAGGTTGGGAAGATTGGCTGGTATATAA |
| Protein sequence |
>Msa1232860 MASVGTVKFLLCLILWLWNCNFLPHCQGKQEYPFIKKASTFSSPSISTTSINKAYDYIIVGGGTAGCPLAATLSQNFSVLVLERGGVPFTNPNVTFLQNFHITLADLSPTSASQYFVSTDGVFNARGRVLGGGSSINAGFYTRASSRAVRDSLIDNGVSPFNGFTYDHIYGTKVGGTIFDRFGRRHTAAELLASGNPDKLTVLVHATVQKIVFDTTGKRPKAIGVIFNDENGKQHEARLVNDMQSEVILSSGAIGSPQMLLLSGIGPKVELQNLNISVVLNNPFVGKGMIDNPMNTVFVPSNRPVHQSLIQTVGITKKGIYIEASSGFSQSNSSIHCHHGIMSPEIGQLHTIPPKQRSIEAIEAYKRNKRDIPVEAFKGGFVLSKVGSAWSAGELKLVNTNVNDNPAVTFNYFSHPYDLKRCVEGISMAIKVVQSEHFTNYTLCKRETAERLLNLSVKTTVNFIPKHANDTTSLEQFCKDTVITIWHYHGGCHVGKVVSPDYKVLDVDRLRVVDGSTFTESPGTNPQATVMMMGRYMGVKILRDRLGRLAGI* |
