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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1234860 | KEH18496.1 | 94.528 | 731 | 29 | 2 | 1 | 724 | 1 | 727 | 0.0 | 1327 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1234860 | sp|Q9M1L7|PRK3_ARATH | 46.246 | 666 | 304 | 15 | 13 | 663 | 5 | 631 | 0.0 | 567 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1234860 | A0A072TMR8 | 94.528 | 731 | 29 | 2 | 1 | 724 | 1 | 727 | 0.0 | 1327 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1234860 | MtrunA17_Chr8g0344471 | 94.528 | 731 | 29 | 2 | 1 | 724 | 1 | 727 | 0.0 | 1327 |
| Msa1234860 | MtrunA17_Chr4g0070291 | 51.070 | 654 | 286 | 9 | 14 | 665 | 6 | 627 | 0.0 | 649 |
| Msa1234860 | MtrunA17_Chr1g0147701 | 38.872 | 656 | 347 | 8 | 15 | 666 | 12 | 617 | 8.56e-145 | 438 |
| Msa1234860 | MtrunA17_Chr2g0334251 | 38.144 | 679 | 382 | 10 | 1 | 669 | 7 | 657 | 1.25e-143 | 436 |
| Msa1234860 | MtrunA17_Chr8g0388991 | 37.557 | 655 | 351 | 8 | 14 | 664 | 17 | 617 | 1.30e-143 | 434 |
| Msa1234860 | MtrunA17_Chr8g0379571 | 38.589 | 666 | 346 | 13 | 8 | 664 | 45 | 656 | 3.72e-143 | 434 |
| Msa1234860 | MtrunA17_Chr2g0301071 | 47.894 | 451 | 198 | 8 | 29 | 477 | 26 | 441 | 1.16e-132 | 400 |
| Msa1234860 | MtrunA17_Chr1g0209521 | 33.968 | 683 | 399 | 13 | 14 | 685 | 19 | 660 | 3.17e-110 | 348 |
| Msa1234860 | MtrunA17_Chr6g0478621 | 34.467 | 676 | 395 | 18 | 31 | 684 | 25 | 674 | 1.95e-102 | 328 |
| Msa1234860 | MtrunA17_Chr3g0128551 | 33.484 | 663 | 372 | 18 | 14 | 664 | 10 | 615 | 5.89e-101 | 323 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1234860 | AT3G42880.1 | 46.246 | 666 | 304 | 15 | 13 | 663 | 5 | 631 | 0.0 | 567 |
| Msa1234860 | AT5G20690.1 | 45.840 | 661 | 304 | 13 | 30 | 665 | 28 | 659 | 0.0 | 557 |
| Msa1234860 | AT4G31250.1 | 36.917 | 707 | 376 | 10 | 11 | 693 | 8 | 668 | 2.51e-146 | 443 |
| Msa1234860 | AT5G35390.1 | 38.813 | 657 | 342 | 13 | 20 | 664 | 21 | 629 | 9.52e-142 | 431 |
| Msa1234860 | AT3G20190.1 | 36.850 | 692 | 381 | 9 | 14 | 688 | 22 | 674 | 1.54e-136 | 418 |
| Msa1234860 | AT2G07040.1 | 36.930 | 658 | 354 | 10 | 16 | 663 | 6 | 612 | 8.86e-134 | 410 |
| Msa1234860 | AT1G50610.1 | 37.785 | 614 | 342 | 10 | 31 | 639 | 46 | 624 | 2.82e-124 | 386 |
| Msa1234860 | AT1G48480.1 | 35.135 | 666 | 364 | 22 | 31 | 674 | 35 | 654 | 1.16e-107 | 342 |
| Msa1234860 | AT3G02880.1 | 35.793 | 637 | 356 | 18 | 31 | 663 | 28 | 615 | 2.13e-103 | 330 |
| Msa1234860 | AT3G17840.1 | 35.123 | 652 | 374 | 19 | 31 | 671 | 33 | 646 | 1.03e-102 | 328 |
Find 112 sgRNAs with CRISPR-Local
Find 150 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACCAATTCGATTCAACTC+TGG | 0.582496 | 8_2:-12599048 | None:intergenic |
| AAACCATAATCTATGAGTAA+TGG | 0.546334 | 8_2:-12600777 | None:intergenic |
| AAAGCATCTGCTGAAGTTCT+TGG | 0.298349 | 8_2:+12599873 | Msa1234860:CDS |
| AAATAGAGTAGACTTCCTCT+AGG | 0.581660 | 8_2:-12600104 | None:intergenic |
| AAATCAAGCAATGTTCTACT+TGG | 0.428353 | 8_2:+12600741 | Msa1234860:CDS |
| AAATTTGAACAATCCTTCAT+TGG | 0.391166 | 8_2:+12599266 | Msa1234860:CDS |
| AACATTACTAGCAGTGTTGT+TGG | 0.416912 | 8_2:-12599481 | None:intergenic |
| AACTTGAAGGGTTAACTAGA+TGG | 0.465665 | 8_2:-12600803 | None:intergenic |
| AAGATCAAGATGAAGAATGG+TGG | 0.612930 | 8_2:-12598736 | None:intergenic |
| AATAATGAGAAGGGTGTGTT+TGG | 0.454488 | 8_2:+12599834 | Msa1234860:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTGAAGATCAAGATGAAGAA+TGG | - | chr8_2:12598742-12598761 | None:intergenic | 30.0% | |
| AGATGTAATTCAACAAGTTG+AGG | - | chr8_2:12599216-12599235 | None:intergenic | 30.0% | |
| ACATCAAATATGACCAATGA+AGG | - | chr8_2:12599282-12599301 | None:intergenic | 30.0% | |
| GAAAAAATCGGCAAAATATG+TGG | + | chr8_2:12599390-12599409 | Msa1234860:CDS | 30.0% | |
| TTATGTGCATCAATAGGAAT+AGG | - | chr8_2:12599441-12599460 | None:intergenic | 30.0% | |
| CATAAGTCATTGCAGATTAT+TGG | + | chr8_2:12599531-12599550 | Msa1234860:CDS | 30.0% | |
| ATCATCTTATAAAGCTGTGA+TGG | + | chr8_2:12599911-12599930 | Msa1234860:CDS | 30.0% | |
| ACTAGAGAATTGAATGCTTT+GGG | + | chr8_2:12599963-12599982 | Msa1234860:CDS | 30.0% | |
| TTTCTGTAATGATAAGCCAA+AGG | - | chr8_2:12600053-12600072 | None:intergenic | 30.0% | |
| AAGAACATATGTCTTACTTG+TGG | - | chr8_2:12600275-12600294 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 12598706 | 12601358 | 12598706 | ID=Msa1234860;Name=Msa1234860 |
| chr8_2 | mRNA | 12598706 | 12601358 | 12598706 | ID=Msa1234860-mRNA-1;Parent=Msa1234860;Name=Msa1234860-mRNA-1;_AED=0.00;_eAED=0.01;_QI=0|0|0|1|1|1|2|0|724 |
| chr8_2 | exon | 12598706 | 12600134 | 12598706 | ID=Msa1234860-mRNA-1:exon:4882;Parent=Msa1234860-mRNA-1 |
| chr8_2 | exon | 12600613 | 12601358 | 12600613 | ID=Msa1234860-mRNA-1:exon:4883;Parent=Msa1234860-mRNA-1 |
| chr8_2 | CDS | 12598706 | 12600134 | 12598706 | ID=Msa1234860-mRNA-1:cds;Parent=Msa1234860-mRNA-1 |
| chr8_2 | CDS | 12600613 | 12601358 | 12600613 | ID=Msa1234860-mRNA-1:cds;Parent=Msa1234860-mRNA-1 |
| Gene Sequence |
>Msa1234860 ATGGCCATAGCAGCTCCTGCAATTTTCCATCCACCATTCTTCATCTTGATCTTCAACATTATCATAAATTTTTCAATGATATATTCTATGTCAGAAACAGAAGCTTTATTAAGCCTAAAAAACTCATTCTCAAATGCTAATGCTCTAAATAGTTGGATTGCCAACACTTTACCTTGTACCGAAGACGATCAATGGGAAGGCGTTGTTTGTTACAACGGTCTTGTAACCGGTCTGCGCCTTGAAGGAATGGGATTATTCGGCAAAATTGATGTTGATGCATTGCTTGAACTTAAAGGTTTAAGAACTATTAGTCTTATGAATAATTCTTTCACTGGTCCGATACCAGAGTTGAATCGAATTGGTTTCTTGAAAGCGATGTTTTTGTCCGGAAACAAATTTTCAGGACATATTCCTAAGGAATATTTTCAAAGAATGAAATCATTGAAGAAAGTTTGGTTATCTAATAATGAATTTACAGGTGATATTCCATCATCATTGGCTGAGATTCCTCAACTTGTTGAATTACATCTTGAAAAAAATCAGTTTAGTGGTAATATTCCAAATTTGAACAATCCTTCATTGGTCATATTTGATGTTTCAAACAATAATTTGGAAGGTGAAGTTCCTCAAGGTTTGTTGAGATTCAATGGAAATTCTTTTTTAGGAAATTCTGGTTTATGTGGCGAAAAAATCGGCAAAATATGTGGACAACAACCAGTGCAACAAACAAATCCTATTCCTATTGATGCACATAATATTACTAATACATCAGTTACCAACAACACTGCTAGTAATGTTATTGTGACTGTGCCTGATAACAGTAAGCATAAGTCATTGCAGATTATTGGTATTGTTATAACAAGTGTAGTAATAATTTCATTAGCTATATTTTTGATTATCAAATCAAGAAAAAATAAAAAGGAGGGTAAATTTGATGATATTATTGGTGAGAAATATGAAAGAGAAAATATTAATGACAGTGGTAGTTTTGAAGTTCAAGTAAGTAGTAGTAATAGTATTACTAGTAGTACTAATCAAGAGAAAAGAGATATGAATTTTGTGAAAAAATCATCTAGTAAAAGAGGTTCATCTCAAGGTAGTAAAGGGATAGGTGAGCTTGTTATGATGAATAATGAGAAGGGTGTGTTTGGTTTACCTGATTTGATGAAAGCATCTGCTGAAGTTCTTGGAAATGGAGGGTTTGGATCATCTTATAAAGCTGTGATGGCTAATGGTGTTGCTGTGGTTGTGAAAAGGACTAGAGAATTGAATGCTTTGGGAAAAGATGGTTTTGATGCTGAGATGAAAAAGCTTGGAAGGTTAAAACATTGGAATGTTTTGACACCTTTGGCTTATCATTACAGAAAAGATGAGAAATTAGTTATCTCTGAGTATGTTCCTAGAGGAAGTCTACTCTATTTGCTGCATGGTGATAGAGGACCATCACATGCAGAACTAGATTGGAACACACGTTTAAAGATAGTACAAGGAATTGCAAAAGGAATGCAATATCTTCACACAGAATTTTCTTCATCTGATTTACCACATGGAAACTTAAAATCAAGCAATGTTCTACTTGGACCAGATTATGAACCATTACTCATAGATTATGGTTTCATCCATCTAGTTAACCCTTCAAGTTTTACAAACACATTATTTGCTTTTAAAGCACCAGAAGCATTACAACACAACCAAATTTCACCTCGTTGTGACGTATACTGTCTCGGTGTAGTCATACTCGAAATACTAACCGGAAAATTTCCTTCTCAATATCTTAGCAACGGTAAAGGCGGAACCGATGTAGTACAATGGGTAGCATCAGCAATTTCTGAAGGAAGAGAAGTTGAACTACTTGATCCTGAAATTGCAAGTAATAAAAATTCATTAGGTGAAATGAAACAACTTGTTCATATTGGTGCTGCTTGTACTGAAAGTAATCCTCAAAACAGATTAGATATGATGGAAGCAGTTAGAAGAATAGAAGAGATTAAAACAAATGGTGTTGATCAAGTTCAAGAATCAAGAACAATAGAGGTTTTACCTTCTCTTAGCGATGGTTTTGGTGATCCTTCTCAAGCATATGATAATCAAGGGCATGTTGGTGATCAATCAAGTAAGAGACATGGAACAAGTAGTTTTGGTAGTAAGGATAATTTTGAATTTGGTATCTCCTAA |
| Protein sequence |
>Msa1234860 MAIAAPAIFHPPFFILIFNIIINFSMIYSMSETEALLSLKNSFSNANALNSWIANTLPCTEDDQWEGVVCYNGLVTGLRLEGMGLFGKIDVDALLELKGLRTISLMNNSFTGPIPELNRIGFLKAMFLSGNKFSGHIPKEYFQRMKSLKKVWLSNNEFTGDIPSSLAEIPQLVELHLEKNQFSGNIPNLNNPSLVIFDVSNNNLEGEVPQGLLRFNGNSFLGNSGLCGEKIGKICGQQPVQQTNPIPIDAHNITNTSVTNNTASNVIVTVPDNSKHKSLQIIGIVITSVVIISLAIFLIIKSRKNKKEGKFDDIIGEKYERENINDSGSFEVQVSSSNSITSSTNQEKRDMNFVKKSSSKRGSSQGSKGIGELVMMNNEKGVFGLPDLMKASAEVLGNGGFGSSYKAVMANGVAVVVKRTRELNALGKDGFDAEMKKLGRLKHWNVLTPLAYHYRKDEKLVISEYVPRGSLLYLLHGDRGPSHAELDWNTRLKIVQGIAKGMQYLHTEFSSSDLPHGNLKSSNVLLGPDYEPLLIDYGFIHLVNPSSFTNTLFAFKAPEALQHNQISPRCDVYCLGVVILEILTGKFPSQYLSNGKGGTDVVQWVASAISEGREVELLDPEIASNKNSLGEMKQLVHIGAACTESNPQNRLDMMEAVRRIEEIKTNGVDQVQESRTIEVLPSLSDGFGDPSQAYDNQGHVGDQSSKRHGTSSFGSKDNFEFGIS* |
