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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0160020 | MCI03548.1 | 78.205 | 78 | 17 | 0 | 5 | 82 | 98 | 175 | 2.76e-33 | 125 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0160020 | sp|Q9M2L4|ACA11_ARATH | 72.727 | 66 | 18 | 0 | 9 | 74 | 632 | 697 | 1.18e-25 | 101 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0160020 | A0A392NUP9 | 78.205 | 78 | 17 | 0 | 5 | 82 | 98 | 175 | 1.32e-33 | 125 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0160020 | Msa0813670 | 0.823452 | 1.374893e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0160020 | MtrunA17_Chr1g0173111 | 90.000 | 70 | 7 | 0 | 5 | 74 | 633 | 702 | 6.11e-36 | 127 |
| Msa0160020 | MtrunA17_Chr8g0382071 | 80.000 | 70 | 14 | 0 | 5 | 74 | 636 | 705 | 5.28e-32 | 116 |
| Msa0160020 | MtrunA17_Chr8g0355421 | 61.842 | 76 | 29 | 0 | 7 | 82 | 629 | 704 | 3.84e-28 | 105 |
| Msa0160020 | MtrunA17_Chr4g0020551 | 77.049 | 61 | 14 | 0 | 9 | 69 | 576 | 636 | 1.47e-25 | 98.2 |
| Msa0160020 | MtrunA17_Chr4g0054021 | 63.636 | 77 | 25 | 1 | 1 | 74 | 552 | 628 | 1.78e-24 | 95.1 |
| Msa0160020 | MtrunA17_Chr5g0401211 | 63.636 | 77 | 25 | 1 | 1 | 74 | 629 | 705 | 1.85e-24 | 95.1 |
| Msa0160020 | MtrunA17_Chr3g0134771 | 70.769 | 65 | 18 | 1 | 10 | 74 | 644 | 707 | 8.22e-23 | 90.5 |
| Msa0160020 | MtrunA17_Chr2g0298871 | 62.712 | 59 | 22 | 0 | 9 | 67 | 688 | 746 | 2.17e-17 | 75.1 |
| Msa0160020 | MtrunA17_Chr4g0002331 | 62.069 | 58 | 22 | 0 | 9 | 66 | 701 | 758 | 3.60e-17 | 74.3 |
| Msa0160020 | MtrunA17_Chr2g0334221 | 55.882 | 68 | 26 | 1 | 7 | 74 | 200 | 263 | 7.57e-17 | 73.2 |
| Msa0160020 | MtrunA17_Chr8g0340261 | 47.059 | 85 | 38 | 2 | 5 | 82 | 178 | 262 | 2.02e-16 | 72.0 |
| Msa0160020 | MtrunA17_Chr6g0456201 | 59.649 | 57 | 23 | 0 | 10 | 66 | 634 | 690 | 1.15e-15 | 70.1 |
| Msa0160020 | MtrunA17_Chr7g0260401 | 50.769 | 65 | 32 | 0 | 2 | 66 | 657 | 721 | 2.98e-15 | 68.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0160020 | AT3G57330.1 | 72.727 | 66 | 18 | 0 | 9 | 74 | 632 | 697 | 1.20e-26 | 101 |
| Msa0160020 | AT3G57330.2 | 72.727 | 66 | 18 | 0 | 9 | 74 | 577 | 642 | 1.39e-26 | 101 |
| Msa0160020 | AT2G41560.2 | 63.014 | 73 | 27 | 0 | 10 | 82 | 534 | 606 | 3.46e-26 | 100 |
| Msa0160020 | AT2G41560.3 | 63.014 | 73 | 27 | 0 | 10 | 82 | 534 | 606 | 3.46e-26 | 100 |
| Msa0160020 | AT2G41560.4 | 63.014 | 73 | 27 | 0 | 10 | 82 | 534 | 606 | 3.46e-26 | 100 |
| Msa0160020 | AT2G41560.1 | 70.769 | 65 | 19 | 0 | 10 | 74 | 636 | 700 | 6.40e-26 | 99.8 |
| Msa0160020 | AT4G37640.1 | 69.231 | 65 | 20 | 0 | 10 | 74 | 641 | 705 | 4.40e-24 | 94.4 |
| Msa0160020 | AT2G22950.1 | 66.667 | 69 | 23 | 0 | 6 | 74 | 638 | 706 | 5.19e-24 | 94.4 |
| Msa0160020 | AT1G27770.4 | 67.647 | 68 | 22 | 0 | 7 | 74 | 641 | 708 | 2.85e-23 | 92.0 |
| Msa0160020 | AT1G27770.1 | 67.647 | 68 | 22 | 0 | 7 | 74 | 641 | 708 | 2.85e-23 | 92.0 |
| Msa0160020 | AT1G27770.3 | 67.647 | 68 | 22 | 0 | 7 | 74 | 578 | 645 | 3.49e-23 | 91.7 |
| Msa0160020 | AT3G21180.1 | 56.923 | 65 | 28 | 0 | 10 | 74 | 684 | 748 | 1.06e-17 | 76.3 |
| Msa0160020 | AT3G63380.1 | 50.769 | 65 | 32 | 0 | 2 | 66 | 625 | 689 | 9.63e-17 | 73.6 |
| Msa0160020 | AT4G29900.1 | 64.912 | 57 | 20 | 0 | 10 | 66 | 671 | 727 | 1.66e-16 | 72.8 |
| Msa0160020 | AT4G29900.2 | 64.912 | 57 | 20 | 0 | 10 | 66 | 671 | 727 | 1.66e-16 | 72.8 |
| Msa0160020 | AT5G57110.1 | 60.345 | 58 | 23 | 0 | 10 | 67 | 667 | 724 | 7.32e-16 | 70.9 |
| Msa0160020 | AT5G57110.3 | 60.345 | 58 | 23 | 0 | 10 | 67 | 667 | 724 | 7.32e-16 | 70.9 |
| Msa0160020 | AT5G57110.2 | 60.345 | 58 | 23 | 0 | 10 | 67 | 667 | 724 | 7.32e-16 | 70.9 |
| Msa0160020 | AT3G22910.1 | 55.172 | 58 | 26 | 0 | 10 | 67 | 629 | 686 | 2.38e-15 | 69.7 |
| Msa0160020 | AT5G53010.1 | 50.000 | 66 | 31 | 2 | 11 | 75 | 678 | 742 | 3.09e-12 | 60.8 |
| Msa0160020 | AT5G53010.2 | 50.000 | 66 | 31 | 2 | 11 | 75 | 690 | 754 | 6.53e-12 | 59.7 |
Find 22 sgRNAs with CRISPR-Local
Find 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCTGTGCACCTTGGAGTTA+AGG | 0.360043 | 1_4:+31791466 | Msa0160020:CDS |
| ATCAAAGTATATCCATTCTC+AGG | 0.364957 | 1_4:-31791422 | None:intergenic |
| GATAGCCATTGTGGGAATCA+AGG | 0.456922 | 1_4:+31791442 | Msa0160020:CDS |
| AGCTGTATTTATGTTATCAC+CGG | 0.490138 | 1_4:-31791537 | None:intergenic |
| ATAAGCGTTTGCATGGTTAC+CGG | 0.491791 | 1_4:+31791518 | Msa0160020:CDS |
| GAAACCAACATCCCTGAGAA+TGG | 0.493607 | 1_4:+31791410 | Msa0160020:CDS |
| TCCTTAACTCCAAGGTGCAC+AGG | 0.505404 | 1_4:-31791467 | None:intergenic |
| ATATCCATTCTCAGGGATGT+TGG | 0.544730 | 1_4:-31791414 | None:intergenic |
| ATCAAGGATCCTGTGCACCT+TGG | 0.551783 | 1_4:+31791458 | Msa0160020:CDS |
| GAACAACTTCCTTAACTCCA+AGG | 0.554343 | 1_4:-31791475 | None:intergenic |
| AGTGAAATGATACAAGTGCT+TGG | 0.560426 | 1_4:-31791615 | None:intergenic |
| AGCAGGAATAAGCGTTTGCA+TGG | 0.560995 | 1_4:+31791511 | Msa0160020:CDS |
| TATACTTTGATAGCCATTGT+GGG | 0.571307 | 1_4:+31791434 | Msa0160020:CDS |
| TGATAACATAAATACAGCTA+AGG | 0.597465 | 1_4:+31791541 | Msa0160020:CDS |
| ATATACTTTGATAGCCATTG+TGG | 0.597537 | 1_4:+31791433 | Msa0160020:CDS |
| TCAAAGTATATCCATTCTCA+GGG | 0.625172 | 1_4:-31791421 | None:intergenic |
| AGGATCCTTGATTCCCACAA+TGG | 0.625525 | 1_4:-31791447 | None:intergenic |
| AGAATGCGGTATACTTACTG+AGG | 0.629838 | 1_4:+31791574 | Msa0160020:CDS |
| TCAAAGATGAAGATGAAACA+AGG | 0.654569 | 1_4:+31791386 | None:intergenic |
| GAATGCGGTATACTTACTGA+GGG | 0.662028 | 1_4:+31791575 | Msa0160020:CDS |
| TGCGGTATACTTACTGAGGG+AGG | 0.662412 | 1_4:+31791578 | Msa0160020:CDS |
| AAGGCTATAGCTAAAGAATG+CGG | 0.709220 | 1_4:+31791560 | Msa0160020:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGATAACATAAATACAGCTA+AGG | + | chr1_4:31791541-31791560 | Msa0160020:CDS | 25.0% |
| TCAAAGTATATCCATTCTCA+GGG | - | chr1_4:31791424-31791443 | None:intergenic | 30.0% | |
| ATCAAAGTATATCCATTCTC+AGG | - | chr1_4:31791425-31791444 | None:intergenic | 30.0% | |
| ! | ATATACTTTGATAGCCATTG+TGG | + | chr1_4:31791433-31791452 | Msa0160020:CDS | 30.0% |
| ! | TATACTTTGATAGCCATTGT+GGG | + | chr1_4:31791434-31791453 | Msa0160020:CDS | 30.0% |
| GTTCAAAAATGTTTAGTAGC+AGG | + | chr1_4:31791494-31791513 | Msa0160020:CDS | 30.0% | |
| AGCTGTATTTATGTTATCAC+CGG | - | chr1_4:31791540-31791559 | None:intergenic | 30.0% | |
| AAGGCTATAGCTAAAGAATG+CGG | + | chr1_4:31791560-31791579 | Msa0160020:CDS | 35.0% | |
| AGTGAAATGATACAAGTGCT+TGG | - | chr1_4:31791618-31791637 | None:intergenic | 35.0% | |
| ATATCCATTCTCAGGGATGT+TGG | - | chr1_4:31791417-31791436 | None:intergenic | 40.0% | |
| GAACAACTTCCTTAACTCCA+AGG | - | chr1_4:31791478-31791497 | None:intergenic | 40.0% | |
| ATAAGCGTTTGCATGGTTAC+CGG | + | chr1_4:31791518-31791537 | Msa0160020:CDS | 40.0% | |
| AGAATGCGGTATACTTACTG+AGG | + | chr1_4:31791574-31791593 | Msa0160020:CDS | 40.0% | |
| GAATGCGGTATACTTACTGA+GGG | + | chr1_4:31791575-31791594 | Msa0160020:CDS | 40.0% | |
| GAAACCAACATCCCTGAGAA+TGG | + | chr1_4:31791410-31791429 | Msa0160020:CDS | 45.0% | |
| GATAGCCATTGTGGGAATCA+AGG | + | chr1_4:31791442-31791461 | Msa0160020:CDS | 45.0% | |
| AGGATCCTTGATTCCCACAA+TGG | - | chr1_4:31791450-31791469 | None:intergenic | 45.0% | |
| AGCAGGAATAAGCGTTTGCA+TGG | + | chr1_4:31791511-31791530 | Msa0160020:CDS | 45.0% | |
| ATCAAGGATCCTGTGCACCT+TGG | + | chr1_4:31791458-31791477 | Msa0160020:CDS | 50.0% | |
| TCCTGTGCACCTTGGAGTTA+AGG | + | chr1_4:31791466-31791485 | Msa0160020:CDS | 50.0% | |
| TCCTTAACTCCAAGGTGCAC+AGG | - | chr1_4:31791470-31791489 | None:intergenic | 50.0% | |
| TGCGGTATACTTACTGAGGG+AGG | + | chr1_4:31791578-31791597 | Msa0160020:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 31791392 | 31791643 | 31791392 | ID=Msa0160020;Name=Msa0160020 |
| chr1_4 | mRNA | 31791392 | 31791643 | 31791392 | ID=Msa0160020-mRNA-1;Parent=Msa0160020;Name=Msa0160020-mRNA-1;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|83 |
| chr1_4 | exon | 31791392 | 31791643 | 31791392 | ID=Msa0160020-mRNA-1:exon:10070;Parent=Msa0160020-mRNA-1 |
| chr1_4 | CDS | 31791392 | 31791643 | 31791392 | ID=Msa0160020-mRNA-1:cds;Parent=Msa0160020-mRNA-1 |
| Gene Sequence |
| Protein sequence |
