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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0636620 | AES87997.1 | 73.333 | 75 | 6 | 3 | 1 | 73 | 29 | 91 | 3.30e-23 | 95.1 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0636620 | sp|Q39191|WAK1_ARATH | 42.202 | 109 | 26 | 3 | 1 | 72 | 454 | 562 | 1.83e-16 | 75.1 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0636620 | G7JUM1 | 73.333 | 75 | 6 | 3 | 1 | 73 | 29 | 91 | 1.57e-23 | 95.1 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0636620 | MtrunA17_Chr3g0125431 | 50.909 | 110 | 17 | 3 | 1 | 73 | 471 | 580 | 9.21e-24 | 92.4 |
| Msa0636620 | MtrunA17_Chr3g0125451 | 48.182 | 110 | 20 | 3 | 1 | 73 | 466 | 575 | 3.81e-23 | 90.9 |
| Msa0636620 | MtrunA17_Chr3g0125441 | 49.091 | 110 | 19 | 3 | 1 | 73 | 501 | 610 | 6.40e-23 | 90.1 |
| Msa0636620 | MtrunA17_Chr2g0279661 | 48.182 | 110 | 20 | 3 | 1 | 73 | 476 | 585 | 4.06e-22 | 87.8 |
| Msa0636620 | MtrunA17_Chr3g0125471 | 46.789 | 109 | 21 | 3 | 1 | 72 | 406 | 514 | 1.67e-20 | 83.2 |
| Msa0636620 | MtrunA17_Chr3g0125461 | 44.545 | 110 | 24 | 2 | 1 | 73 | 489 | 598 | 9.94e-20 | 81.3 |
| Msa0636620 | MtrunA17_Chr3g0125491 | 44.545 | 110 | 24 | 3 | 1 | 73 | 102 | 211 | 1.49e-19 | 80.1 |
| Msa0636620 | MtrunA17_Chr1g0158201 | 46.847 | 111 | 21 | 4 | 1 | 73 | 456 | 566 | 4.09e-19 | 79.3 |
| Msa0636620 | MtrunA17_Chr1g0158261 | 46.847 | 111 | 21 | 4 | 1 | 73 | 452 | 562 | 4.87e-19 | 79.3 |
| Msa0636620 | MtrunA17_Chr1g0158231 | 45.946 | 111 | 22 | 4 | 1 | 73 | 172 | 282 | 5.61e-19 | 79.0 |
| Msa0636620 | MtrunA17_Chr1g0158291 | 44.144 | 111 | 24 | 2 | 1 | 73 | 98 | 208 | 8.60e-19 | 78.2 |
| Msa0636620 | MtrunA17_Chr1g0158211 | 45.045 | 111 | 23 | 3 | 1 | 73 | 194 | 304 | 9.48e-19 | 78.2 |
| Msa0636620 | MtrunA17_Chr1g0158251 | 45.946 | 111 | 22 | 4 | 1 | 73 | 461 | 571 | 9.82e-19 | 78.2 |
| Msa0636620 | MtrunA17_Chr1g0158171 | 44.144 | 111 | 24 | 3 | 1 | 73 | 183 | 293 | 1.22e-18 | 77.8 |
| Msa0636620 | MtrunA17_Chr1g0148501 | 44.444 | 108 | 23 | 3 | 3 | 73 | 477 | 584 | 2.86e-17 | 73.9 |
| Msa0636620 | MtrunA17_Chr1g0148511 | 43.243 | 111 | 25 | 3 | 1 | 73 | 468 | 578 | 6.69e-17 | 73.2 |
| Msa0636620 | MtrunA17_Chr1g0148461 | 42.593 | 108 | 25 | 3 | 3 | 73 | 484 | 591 | 2.01e-16 | 71.6 |
| Msa0636620 | MtrunA17_Chr1g0148491 | 39.640 | 111 | 29 | 3 | 1 | 73 | 382 | 492 | 3.01e-15 | 68.6 |
| Msa0636620 | MtrunA17_Chr7g0248881 | 38.532 | 109 | 30 | 3 | 1 | 72 | 400 | 508 | 1.32e-14 | 66.6 |
| Msa0636620 | MtrunA17_Chr7g0248904 | 36.697 | 109 | 32 | 3 | 1 | 72 | 407 | 515 | 3.33e-13 | 62.4 |
| Msa0636620 | MtrunA17_Chr7g0265391 | 39.216 | 102 | 26 | 4 | 3 | 68 | 393 | 494 | 5.21e-12 | 59.3 |
| Msa0636620 | MtrunA17_Chr8g0369231 | 65.854 | 41 | 14 | 0 | 29 | 69 | 385 | 425 | 6.64e-12 | 58.9 |
| Msa0636620 | MtrunA17_Chr8g0369211 | 65.854 | 41 | 14 | 0 | 29 | 69 | 738 | 778 | 9.69e-12 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0636620 | AT1G21250.1 | 42.202 | 109 | 26 | 3 | 1 | 72 | 454 | 562 | 1.86e-17 | 75.1 |
| Msa0636620 | AT1G21210.1 | 41.284 | 109 | 27 | 3 | 1 | 72 | 455 | 563 | 2.92e-17 | 74.3 |
| Msa0636620 | AT1G21230.1 | 41.818 | 110 | 27 | 3 | 1 | 73 | 453 | 562 | 4.52e-17 | 73.9 |
| Msa0636620 | AT1G21240.1 | 40.367 | 109 | 28 | 3 | 1 | 72 | 460 | 568 | 4.62e-17 | 73.9 |
| Msa0636620 | AT1G21240.2 | 40.367 | 109 | 28 | 3 | 1 | 72 | 199 | 307 | 5.23e-17 | 73.6 |
| Msa0636620 | AT1G21270.1 | 40.367 | 109 | 28 | 3 | 1 | 72 | 449 | 557 | 1.02e-16 | 72.8 |
| Msa0636620 | AT1G19390.1 | 40.000 | 110 | 29 | 3 | 1 | 73 | 496 | 605 | 3.55e-15 | 68.6 |
| Msa0636620 | AT1G69730.1 | 38.739 | 111 | 30 | 3 | 1 | 73 | 492 | 602 | 6.75e-15 | 67.8 |
| Msa0636620 | AT1G79680.1 | 36.036 | 111 | 33 | 2 | 1 | 73 | 478 | 588 | 9.77e-15 | 67.4 |
| Msa0636620 | AT4G31110.2 | 37.838 | 111 | 31 | 3 | 1 | 73 | 476 | 586 | 4.39e-14 | 65.5 |
| Msa0636620 | AT4G31110.1 | 37.838 | 111 | 31 | 3 | 1 | 73 | 498 | 608 | 4.39e-14 | 65.5 |
| Msa0636620 | AT3G25490.1 | 39.450 | 109 | 29 | 3 | 1 | 72 | 153 | 261 | 5.91e-14 | 65.1 |
| Msa0636620 | AT4G31100.1 | 37.838 | 111 | 31 | 3 | 1 | 73 | 489 | 599 | 8.61e-14 | 64.7 |
| Msa0636620 | AT1G79670.1 | 39.815 | 108 | 28 | 4 | 3 | 73 | 468 | 575 | 1.09e-13 | 64.3 |
| Msa0636620 | AT1G79670.2 | 39.815 | 108 | 28 | 4 | 3 | 73 | 431 | 538 | 1.27e-13 | 64.3 |
| Msa0636620 | AT1G79620.5 | 68.293 | 41 | 13 | 0 | 29 | 69 | 773 | 813 | 1.84e-12 | 60.8 |
| Msa0636620 | AT1G79620.1 | 68.293 | 41 | 13 | 0 | 29 | 69 | 747 | 787 | 2.03e-12 | 60.8 |
| Msa0636620 | AT1G79620.2 | 68.293 | 41 | 13 | 0 | 29 | 69 | 747 | 787 | 3.85e-12 | 60.1 |
| Msa0636620 | AT5G02070.1 | 36.111 | 108 | 30 | 3 | 3 | 71 | 410 | 517 | 1.06e-11 | 58.5 |
| Msa0636620 | AT5G49760.1 | 63.415 | 41 | 15 | 0 | 29 | 69 | 740 | 780 | 3.99e-11 | 57.0 |
| Msa0636620 | AT5G49770.1 | 36.893 | 103 | 29 | 2 | 3 | 69 | 681 | 783 | 9.43e-11 | 55.8 |
Find 17 sgRNAs with CRISPR-Local
Find 19 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCACATTTCTATGATTGATT+TGG | 0.235540 | 4_3:-27479330 | None:intergenic |
| TAGAAATGTGGTAAAGCTTT+TGG | 0.271838 | 4_3:+27479342 | Msa0636620:CDS |
| CACATTTCTATGATTGATTT+GGG | 0.299102 | 4_3:-27479329 | None:intergenic |
| TTGTAGTGAGATTGTGATCT+AGG | 0.340840 | 4_3:-27479571 | None:intergenic |
| AATGGTTATCTATGATTAAG+AGG | 0.386446 | 4_3:-27479626 | None:intergenic |
| TTCACATCTCTATGTATGAT+TGG | 0.393983 | 4_3:-27479533 | None:intergenic |
| TTCCTGACTTTGTATCTTCA+AGG | 0.404618 | 4_3:+27479597 | Msa0636620:CDS |
| AAACTATTGGGCTCCTATCC+TGG | 0.410156 | 4_3:+27479484 | Msa0636620:CDS |
| AGAATGGCAAAAGAAACTAT+TGG | 0.429125 | 4_3:+27479471 | Msa0636620:CDS |
| GAATGGCAAAAGAAACTATT+GGG | 0.438090 | 4_3:+27479472 | Msa0636620:CDS |
| CAGTTGAATGAAAGTATGCC+AGG | 0.474909 | 4_3:-27479502 | None:intergenic |
| TTGGAATACAAGAATGAGAA+TGG | 0.502707 | 4_3:+27479455 | Msa0636620:intron |
| ATCCTTGAAGATACAAAGTC+AGG | 0.530026 | 4_3:-27479599 | None:intergenic |
| GAATGAAAGTATGCCAGGAT+AGG | 0.550701 | 4_3:-27479497 | None:intergenic |
| TCTATGTATGATTGGTGTAG+AGG | 0.575368 | 4_3:-27479525 | None:intergenic |
| CCAAATCAATCATAGAAATG+TGG | 0.613579 | 4_3:+27479330 | Msa0636620:CDS |
| AGATCACAATCTCACTACAA+AGG | 0.665662 | 4_3:+27479574 | Msa0636620:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CACATTTCTATGATTGATTT+GGG | - | chr4_3:27479332-27479351 | None:intergenic | 25.0% |
| ! | GTTTACGAATTTATTCTCAA+TGG | + | chr4_3:27479384-27479403 | Msa0636620:intron | 25.0% |
| CCACATTTCTATGATTGATT+TGG | - | chr4_3:27479333-27479352 | None:intergenic | 30.0% | |
| CCAAATCAATCATAGAAATG+TGG | + | chr4_3:27479330-27479349 | Msa0636620:CDS | 30.0% | |
| ! | TAGAAATGTGGTAAAGCTTT+TGG | + | chr4_3:27479342-27479361 | Msa0636620:CDS | 30.0% |
| !! | ACCAATCTTTAAAGCTTACT+TGG | + | chr4_3:27479436-27479455 | Msa0636620:intron | 30.0% |
| !! | TCCAAGTAAGCTTTAAAGAT+TGG | - | chr4_3:27479440-27479459 | None:intergenic | 30.0% |
| TTGGAATACAAGAATGAGAA+TGG | + | chr4_3:27479455-27479474 | Msa0636620:intron | 30.0% | |
| AGAATGGCAAAAGAAACTAT+TGG | + | chr4_3:27479471-27479490 | Msa0636620:CDS | 30.0% | |
| GAATGGCAAAAGAAACTATT+GGG | + | chr4_3:27479472-27479491 | Msa0636620:CDS | 30.0% | |
| TTCACATCTCTATGTATGAT+TGG | - | chr4_3:27479536-27479555 | None:intergenic | 30.0% | |
| TCTATGTATGATTGGTGTAG+AGG | - | chr4_3:27479528-27479547 | None:intergenic | 35.0% | |
| TTGTAGTGAGATTGTGATCT+AGG | - | chr4_3:27479574-27479593 | None:intergenic | 35.0% | |
| AGATCACAATCTCACTACAA+AGG | + | chr4_3:27479574-27479593 | Msa0636620:CDS | 35.0% | |
| TTCCTGACTTTGTATCTTCA+AGG | + | chr4_3:27479597-27479616 | Msa0636620:CDS | 35.0% | |
| ATCCTTGAAGATACAAAGTC+AGG | - | chr4_3:27479602-27479621 | None:intergenic | 35.0% | |
| ! | GAATGAAAGTATGCCAGGAT+AGG | - | chr4_3:27479500-27479519 | None:intergenic | 40.0% |
| ! | CAGTTGAATGAAAGTATGCC+AGG | - | chr4_3:27479505-27479524 | None:intergenic | 40.0% |
| AAACTATTGGGCTCCTATCC+TGG | + | chr4_3:27479484-27479503 | Msa0636620:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 27479316 | 27479643 | 27479316 | ID=Msa0636620;Name=Msa0636620 |
| chr4_3 | mRNA | 27479316 | 27479643 | 27479316 | ID=Msa0636620-mRNA-1;Parent=Msa0636620;Name=Msa0636620-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|0|0|1|0|0|2|0|74 |
| chr4_3 | exon | 27479316 | 27479363 | 27479316 | ID=Msa0636620-mRNA-1:exon:6792;Parent=Msa0636620-mRNA-1 |
| chr4_3 | exon | 27479467 | 27479643 | 27479467 | ID=Msa0636620-mRNA-1:exon:6793;Parent=Msa0636620-mRNA-1 |
| chr4_3 | CDS | 27479316 | 27479363 | 27479316 | ID=Msa0636620-mRNA-1:cds;Parent=Msa0636620-mRNA-1 |
| chr4_3 | CDS | 27479467 | 27479643 | 27479467 | ID=Msa0636620-mRNA-1:cds;Parent=Msa0636620-mRNA-1 |
| Gene Sequence |
| Protein sequence |
