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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0618450 | XP_003629983.2 | 93.243 | 74 | 5 | 0 | 2 | 75 | 564 | 637 | 1.16e-36 | 140 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0618450 | sp|C0LGS2|Y4361_ARATH | 44.444 | 72 | 39 | 1 | 5 | 76 | 353 | 423 | 2.17e-13 | 66.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0618450 | Msa0885290 | 0.816404 | 5.626765e-52 | -8.615850e-47 |
| Msa0618450 | Msa1092390 | 0.805967 | 1.033534e-49 | -8.615850e-47 |
| Msa0153910 | Msa0618450 | 0.813164 | 2.940180e-51 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0618450 | MtrunA17_Chr8g0380811 | 93.243 | 74 | 5 | 0 | 2 | 75 | 565 | 638 | 1.07e-40 | 140 |
| Msa0618450 | MtrunA17_Chr4g0008241 | 84.000 | 75 | 12 | 0 | 2 | 76 | 569 | 643 | 9.90e-37 | 129 |
| Msa0618450 | MtrunA17_Chr8g0380831 | 65.753 | 73 | 23 | 2 | 2 | 74 | 569 | 639 | 3.53e-21 | 85.5 |
| Msa0618450 | MtrunA17_Chr6g0465171 | 51.429 | 70 | 34 | 0 | 5 | 74 | 2 | 71 | 1.87e-19 | 75.9 |
| Msa0618450 | MtrunA17_Chr6g0465231 | 50.000 | 72 | 36 | 0 | 3 | 74 | 776 | 847 | 1.01e-18 | 78.6 |
| Msa0618450 | MtrunA17_Chr5g0436581 | 50.000 | 72 | 33 | 1 | 5 | 76 | 2 | 70 | 1.72e-18 | 76.3 |
| Msa0618450 | MtrunA17_Chr5g0439461 | 50.000 | 74 | 34 | 1 | 3 | 76 | 757 | 827 | 3.40e-18 | 77.0 |
| Msa0618450 | MtrunA17_Chr6g0465151 | 47.222 | 72 | 38 | 0 | 3 | 74 | 567 | 638 | 5.30e-18 | 76.3 |
| Msa0618450 | MtrunA17_Chr4g0004161 | 45.946 | 74 | 37 | 1 | 3 | 76 | 736 | 806 | 1.60e-17 | 75.1 |
| Msa0618450 | MtrunA17_Chr6g0465131 | 46.575 | 73 | 39 | 0 | 3 | 75 | 781 | 853 | 1.65e-17 | 75.1 |
| Msa0618450 | MtrunA17_Chr6g0465291 | 50.000 | 72 | 36 | 0 | 3 | 74 | 863 | 934 | 1.86e-17 | 74.7 |
| Msa0618450 | MtrunA17_Chr6g0465211 | 48.611 | 72 | 37 | 0 | 3 | 74 | 753 | 824 | 4.29e-17 | 73.6 |
| Msa0618450 | MtrunA17_Chr5g0441501 | 51.724 | 58 | 28 | 0 | 3 | 60 | 96 | 153 | 5.19e-17 | 70.1 |
| Msa0618450 | MtrunA17_Chr6g0465181 | 48.611 | 72 | 37 | 0 | 3 | 74 | 810 | 881 | 6.99e-17 | 73.2 |
| Msa0618450 | MtrunA17_Chr1g0202001 | 48.649 | 74 | 37 | 1 | 3 | 75 | 671 | 744 | 7.55e-17 | 73.2 |
| Msa0618450 | MtrunA17_Chr6g0464631 | 48.611 | 72 | 37 | 0 | 3 | 74 | 867 | 938 | 1.34e-16 | 72.4 |
| Msa0618450 | MtrunA17_Chr5g0439451 | 47.297 | 74 | 36 | 1 | 3 | 76 | 788 | 858 | 1.41e-16 | 72.4 |
| Msa0618450 | MtrunA17_Chr6g0465251 | 45.122 | 82 | 35 | 1 | 3 | 74 | 169 | 250 | 7.88e-16 | 70.1 |
| Msa0618450 | MtrunA17_Chr6g0463291 | 48.611 | 72 | 37 | 0 | 3 | 74 | 419 | 490 | 9.61e-16 | 69.7 |
| Msa0618450 | MtrunA17_Chr1g0202191 | 45.833 | 72 | 38 | 1 | 5 | 75 | 2 | 73 | 1.18e-15 | 65.5 |
| Msa0618450 | MtrunA17_Chr6g0463281 | 50.000 | 72 | 36 | 0 | 3 | 74 | 782 | 853 | 1.60e-15 | 69.3 |
| Msa0618450 | MtrunA17_Chr1g0190571 | 46.575 | 73 | 39 | 0 | 3 | 75 | 419 | 491 | 3.19e-15 | 68.6 |
| Msa0618450 | MtrunA17_Chr6g0463301 | 48.611 | 72 | 37 | 0 | 3 | 74 | 761 | 832 | 1.03e-14 | 67.0 |
| Msa0618450 | MtrunA17_Chr8g0354031 | 47.222 | 72 | 35 | 1 | 3 | 74 | 554 | 622 | 4.01e-14 | 65.5 |
| Msa0618450 | MtrunA17_Chr3g0106171 | 45.946 | 74 | 39 | 1 | 3 | 75 | 652 | 725 | 4.84e-14 | 65.1 |
| Msa0618450 | MtrunA17_Chr8g0354041 | 44.444 | 72 | 37 | 1 | 3 | 74 | 560 | 628 | 5.02e-14 | 65.1 |
| Msa0618450 | MtrunA17_Chr6g0463251 | 47.222 | 72 | 38 | 0 | 3 | 74 | 742 | 813 | 5.30e-14 | 65.1 |
| Msa0618450 | MtrunA17_Chr8g0354021 | 45.833 | 72 | 36 | 1 | 3 | 74 | 530 | 598 | 2.35e-13 | 63.2 |
| Msa0618450 | MtrunA17_Chr6g0455781 | 47.945 | 73 | 37 | 1 | 4 | 76 | 515 | 586 | 2.66e-13 | 62.8 |
| Msa0618450 | MtrunA17_Chr6g0455751 | 44.000 | 75 | 41 | 1 | 2 | 76 | 401 | 474 | 2.70e-13 | 62.8 |
| Msa0618450 | MtrunA17_Chr4g0022051 | 41.667 | 72 | 41 | 1 | 5 | 75 | 2 | 73 | 2.90e-13 | 62.8 |
| Msa0618450 | MtrunA17_Chr1g0169661 | 41.667 | 72 | 41 | 1 | 5 | 75 | 2 | 73 | 6.55e-13 | 61.6 |
| Msa0618450 | MtrunA17_Chr2g0302971 | 42.466 | 73 | 42 | 0 | 3 | 75 | 180 | 252 | 6.74e-13 | 61.6 |
| Msa0618450 | MtrunA17_Chr6g0455671 | 44.000 | 75 | 41 | 1 | 2 | 76 | 580 | 653 | 9.49e-13 | 61.2 |
| Msa0618450 | MtrunA17_Chr6g0455861 | 44.000 | 75 | 41 | 1 | 2 | 76 | 153 | 226 | 1.78e-12 | 60.5 |
| Msa0618450 | MtrunA17_Chr6g0455881 | 44.595 | 74 | 40 | 1 | 3 | 76 | 662 | 734 | 2.18e-12 | 60.5 |
| Msa0618450 | MtrunA17_Chr1g0161331 | 46.032 | 63 | 33 | 1 | 3 | 64 | 353 | 415 | 4.30e-12 | 59.3 |
| Msa0618450 | MtrunA17_Chr6g0455811 | 42.667 | 75 | 42 | 1 | 2 | 76 | 615 | 688 | 4.62e-12 | 59.3 |
| Msa0618450 | MtrunA17_Chr4g0051961 | 41.096 | 73 | 43 | 0 | 4 | 76 | 647 | 719 | 9.29e-12 | 58.5 |
| Msa0618450 | MtrunA17_Chr6g0455731 | 41.333 | 75 | 43 | 1 | 2 | 76 | 595 | 668 | 1.31e-11 | 58.2 |
| Msa0618450 | MtrunA17_Chr6g0455851 | 44.595 | 74 | 40 | 1 | 3 | 76 | 664 | 736 | 1.38e-11 | 58.2 |
| Msa0618450 | MtrunA17_Chr2g0304331 | 40.541 | 74 | 44 | 0 | 2 | 75 | 749 | 822 | 1.47e-11 | 58.2 |
| Msa0618450 | MtrunA17_Chr4g0052921 | 41.667 | 72 | 41 | 1 | 3 | 74 | 485 | 555 | 2.40e-11 | 57.4 |
| Msa0618450 | MtrunA17_Chr6g0455761 | 41.892 | 74 | 42 | 1 | 3 | 76 | 587 | 659 | 2.44e-11 | 57.4 |
| Msa0618450 | MtrunA17_Chr6g0455721 | 41.892 | 74 | 42 | 1 | 3 | 76 | 591 | 663 | 2.63e-11 | 57.4 |
| Msa0618450 | MtrunA17_Chr4g0009791 | 42.254 | 71 | 40 | 1 | 4 | 74 | 67 | 136 | 3.29e-11 | 55.8 |
| Msa0618450 | MtrunA17_Chr4g0058761 | 44.444 | 72 | 40 | 0 | 3 | 74 | 546 | 617 | 4.74e-11 | 56.6 |
| Msa0618450 | MtrunA17_Chr2g0278861 | 42.105 | 76 | 43 | 1 | 1 | 76 | 87 | 161 | 5.18e-11 | 56.6 |
| Msa0618450 | MtrunA17_Chr5g0407241 | 41.096 | 73 | 42 | 1 | 2 | 74 | 403 | 474 | 5.87e-11 | 56.2 |
| Msa0618450 | MtrunA17_Chr5g0420301 | 41.538 | 65 | 38 | 0 | 3 | 67 | 452 | 516 | 7.58e-11 | 55.8 |
| Msa0618450 | MtrunA17_Chr8g0363061 | 42.466 | 73 | 41 | 1 | 3 | 75 | 165 | 236 | 7.71e-11 | 55.8 |
| Msa0618450 | MtrunA17_Chr8g0354061 | 37.838 | 74 | 43 | 1 | 2 | 75 | 560 | 630 | 7.91e-11 | 55.8 |
| Msa0618450 | MtrunA17_Chr5g0436921 | 42.254 | 71 | 40 | 1 | 4 | 74 | 505 | 574 | 8.00e-11 | 55.8 |
| Msa0618450 | MtrunA17_Chr6g0455801 | 40.000 | 75 | 44 | 1 | 2 | 76 | 588 | 661 | 8.08e-11 | 55.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0618450 | AT4G36180.1 | 44.444 | 72 | 39 | 1 | 5 | 76 | 353 | 423 | 2.21e-14 | 66.6 |
| Msa0618450 | AT2G34930.1 | 43.836 | 73 | 40 | 1 | 2 | 74 | 657 | 728 | 1.49e-12 | 61.2 |
| Msa0618450 | AT1G75640.1 | 38.028 | 71 | 43 | 1 | 5 | 75 | 359 | 428 | 1.31e-11 | 58.5 |
| Msa0618450 | AT2G13790.1 | 42.466 | 73 | 41 | 1 | 4 | 76 | 95 | 166 | 3.86e-11 | 57.4 |
| Msa0618450 | AT3G24240.1 | 41.096 | 73 | 42 | 1 | 4 | 76 | 294 | 365 | 3.94e-11 | 57.4 |
| Msa0618450 | AT1G12460.2 | 46.970 | 66 | 34 | 1 | 9 | 74 | 146 | 210 | 5.59e-11 | 56.6 |
| Msa0618450 | AT4G39400.1 | 46.970 | 66 | 34 | 1 | 10 | 75 | 490 | 554 | 5.61e-11 | 56.6 |
| Msa0618450 | AT1G12460.1 | 46.970 | 66 | 34 | 1 | 9 | 74 | 285 | 349 | 6.14e-11 | 56.6 |
| Msa0618450 | AT4G33430.1 | 43.836 | 73 | 40 | 1 | 4 | 76 | 88 | 159 | 6.94e-11 | 56.6 |
| Msa0618450 | AT3G12610.1 | 42.254 | 71 | 40 | 1 | 4 | 74 | 203 | 272 | 7.94e-11 | 56.2 |
| Msa0618450 | AT1G55610.1 | 48.485 | 66 | 33 | 1 | 9 | 74 | 476 | 540 | 9.14e-11 | 56.2 |
| Msa0618450 | AT1G55610.2 | 48.485 | 66 | 33 | 1 | 9 | 74 | 476 | 540 | 9.14e-11 | 56.2 |
| Msa0618450 | AT3G47570.1 | 48.611 | 72 | 36 | 1 | 5 | 76 | 382 | 452 | 9.29e-11 | 56.2 |
Find 20 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATCTTAGAGACACTTATAT+TGG | 0.272252 | 4_2:+69420724 | Msa0618450:CDS |
| ATTTACAGTCGAATCGATTA+AGG | 0.278662 | 4_2:+69420666 | Msa0618450:CDS |
| TTGTCAAGTGATGACTTTAC+TGG | 0.281292 | 4_2:+69420643 | Msa0618450:CDS |
| TTGGGTAGGAATTCCTTTGA+TGG | 0.405637 | 4_2:+69420743 | Msa0618450:CDS |
| TTGAGTAGGCATTAAGTTGT+TGG | 0.420902 | 4_2:-69420773 | None:intergenic |
| ATGTATGTACCAATCCAATA+TGG | 0.423560 | 4_2:-69420698 | None:intergenic |
| ATCTTAGAGACACTTATATT+GGG | 0.428766 | 4_2:+69420725 | Msa0618450:CDS |
| ATGTACAACAATAATCTCTC+TGG | 0.456834 | 4_2:+69420596 | Msa0618450:CDS |
| TTTACAGTCGAATCGATTAA+GGG | 0.459912 | 4_2:+69420667 | Msa0618450:CDS |
| TCAACATGTGGAGATTTATG+AGG | 0.472392 | 4_2:-69420571 | None:intergenic |
| TGTACCAATCCAATATGGTA+TGG | 0.473519 | 4_2:-69420693 | None:intergenic |
| GGGTCAATTCCAGATTCCTT+TGG | 0.485704 | 4_2:+69420545 | Msa0618450:intron |
| TGTTGGAATATTTCCATCAA+AGG | 0.492060 | 4_2:-69420756 | None:intergenic |
| TGTTGTACATTATCAACATG+TGG | 0.572400 | 4_2:-69420583 | None:intergenic |
| GTACCAATCCAATATGGTAT+GGG | 0.573915 | 4_2:-69420692 | None:intergenic |
| GGGCCCATACCATATTGGAT+TGG | 0.591426 | 4_2:+69420689 | Msa0618450:CDS |
| TTACAGTCGAATCGATTAAG+GGG | 0.614666 | 4_2:+69420668 | Msa0618450:CDS |
| TAGAGACACTTATATTGGGT+AGG | 0.615885 | 4_2:+69420729 | Msa0618450:CDS |
| GAGATTTATGAGGCTACCAA+AGG | 0.632536 | 4_2:-69420561 | None:intergenic |
| TACAGTCGAATCGATTAAGG+GGG | 0.656125 | 4_2:+69420669 | Msa0618450:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAACTGATTATTCTAAATC+TGG | + | chr4_2:69420505-69420524 | Msa0618450:intron | 20.0% |
| !! | TGGCTAAAGACAATTTTATT+GGG | + | chr4_2:69420525-69420544 | Msa0618450:intron | 25.0% |
| !!! | TTGACAATTTTTTAGTGTCT+CGG | - | chr4_2:69420630-69420649 | None:intergenic | 25.0% |
| ! | AATCTTAGAGACACTTATAT+TGG | + | chr4_2:69420724-69420743 | Msa0618450:CDS | 25.0% |
| ! | ATCTTAGAGACACTTATATT+GGG | + | chr4_2:69420725-69420744 | Msa0618450:CDS | 25.0% |
| ! | CTGGCTAAAGACAATTTTAT+TGG | + | chr4_2:69420524-69420543 | Msa0618450:intron | 30.0% |
| TGTTGTACATTATCAACATG+TGG | - | chr4_2:69420586-69420605 | None:intergenic | 30.0% | |
| ATGTACAACAATAATCTCTC+TGG | + | chr4_2:69420596-69420615 | Msa0618450:CDS | 30.0% | |
| !!! | TGACAATTTTTTAGTGTCTC+GGG | - | chr4_2:69420629-69420648 | None:intergenic | 30.0% |
| ATTTACAGTCGAATCGATTA+AGG | + | chr4_2:69420666-69420685 | Msa0618450:CDS | 30.0% | |
| TTTACAGTCGAATCGATTAA+GGG | + | chr4_2:69420667-69420686 | Msa0618450:CDS | 30.0% | |
| ATGTATGTACCAATCCAATA+TGG | - | chr4_2:69420701-69420720 | None:intergenic | 30.0% | |
| TGTTGGAATATTTCCATCAA+AGG | - | chr4_2:69420759-69420778 | None:intergenic | 30.0% | |
| TCAACATGTGGAGATTTATG+AGG | - | chr4_2:69420574-69420593 | None:intergenic | 35.0% | |
| TTGTCAAGTGATGACTTTAC+TGG | + | chr4_2:69420643-69420662 | Msa0618450:CDS | 35.0% | |
| TTACAGTCGAATCGATTAAG+GGG | + | chr4_2:69420668-69420687 | Msa0618450:CDS | 35.0% | |
| GTACCAATCCAATATGGTAT+GGG | - | chr4_2:69420695-69420714 | None:intergenic | 35.0% | |
| TGTACCAATCCAATATGGTA+TGG | - | chr4_2:69420696-69420715 | None:intergenic | 35.0% | |
| TAGAGACACTTATATTGGGT+AGG | + | chr4_2:69420729-69420748 | Msa0618450:CDS | 35.0% | |
| GAGATTTATGAGGCTACCAA+AGG | - | chr4_2:69420564-69420583 | None:intergenic | 40.0% | |
| TACAGTCGAATCGATTAAGG+GGG | + | chr4_2:69420669-69420688 | Msa0618450:CDS | 40.0% | |
| TTGGGTAGGAATTCCTTTGA+TGG | + | chr4_2:69420743-69420762 | Msa0618450:CDS | 40.0% | |
| GGGTCAATTCCAGATTCCTT+TGG | + | chr4_2:69420545-69420564 | Msa0618450:intron | 45.0% | |
| ATGAGGCTACCAAAGGAATC+TGG | - | chr4_2:69420557-69420576 | None:intergenic | 45.0% | |
| TAAGGGGGCCCATACCATAT+TGG | + | chr4_2:69420684-69420703 | Msa0618450:CDS | 50.0% | |
| GGGCCCATACCATATTGGAT+TGG | + | chr4_2:69420689-69420708 | Msa0618450:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 69420498 | 69420784 | 69420498 | ID=Msa0618450;Name=Msa0618450 |
| chr4_2 | mRNA | 69420498 | 69420784 | 69420498 | ID=Msa0618450-mRNA-1;Parent=Msa0618450;Name=Msa0618450-mRNA-1;_AED=0.48;_eAED=0.49;_QI=0|0|0|1|1|1|2|0|76 |
| chr4_2 | exon | 69420498 | 69420501 | 69420498 | ID=Msa0618450-mRNA-1:exon:20069;Parent=Msa0618450-mRNA-1 |
| chr4_2 | exon | 69420558 | 69420784 | 69420558 | ID=Msa0618450-mRNA-1:exon:20070;Parent=Msa0618450-mRNA-1 |
| chr4_2 | CDS | 69420498 | 69420501 | 69420498 | ID=Msa0618450-mRNA-1:cds;Parent=Msa0618450-mRNA-1 |
| chr4_2 | CDS | 69420558 | 69420784 | 69420558 | ID=Msa0618450-mRNA-1:cds;Parent=Msa0618450-mRNA-1 |
| Gene Sequence |
| Protein sequence |
