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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0943210 | sp|Q25AG3|LERK3_ORYSI | 41.329 | 692 | 359 | 18 | 23 | 688 | 26 | 696 | 7.74e-167 | 502 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0943210 | MtrunA17_Chr5g0399561 | 93.324 | 689 | 44 | 2 | 1 | 688 | 1 | 688 | 0.0 | 1332 |
| Msa0943210 | MtrunA17_Chr5g0399591 | 81.014 | 690 | 123 | 5 | 1 | 688 | 2 | 685 | 0.0 | 1140 |
| Msa0943210 | MtrunA17_Chr2g0311521 | 44.311 | 668 | 336 | 13 | 40 | 692 | 276 | 922 | 0.0 | 542 |
| Msa0943210 | MtrunA17_Chr8g0338471 | 43.687 | 689 | 339 | 22 | 32 | 692 | 36 | 703 | 2.44e-179 | 531 |
| Msa0943210 | MtrunA17_Chr2g0311541 | 42.920 | 678 | 346 | 16 | 32 | 692 | 26 | 679 | 3.01e-177 | 525 |
| Msa0943210 | MtrunA17_Chr2g0311551 | 43.452 | 672 | 338 | 14 | 32 | 688 | 267 | 911 | 1.07e-176 | 531 |
| Msa0943210 | MtrunA17_Chr8g0338501 | 42.692 | 691 | 345 | 21 | 32 | 692 | 65 | 734 | 5.89e-173 | 516 |
| Msa0943210 | MtrunA17_Chr8g0338531 | 40.155 | 645 | 324 | 17 | 92 | 692 | 12 | 638 | 6.11e-142 | 432 |
| Msa0943210 | MtrunA17_Chr4g0063701 | 37.032 | 694 | 359 | 19 | 40 | 693 | 53 | 708 | 2.56e-127 | 397 |
| Msa0943210 | MtrunA17_Chr5g0394381 | 35.234 | 684 | 382 | 23 | 31 | 692 | 29 | 673 | 2.76e-102 | 330 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0943210 | AT5G24080.2 | 30.980 | 694 | 407 | 23 | 37 | 687 | 42 | 706 | 1.42e-78 | 269 |
| Msa0943210 | AT1G34300.1 | 31.384 | 701 | 386 | 27 | 20 | 688 | 23 | 660 | 2.50e-72 | 251 |
| Msa0943210 | AT5G24080.3 | 30.897 | 602 | 353 | 18 | 126 | 687 | 1 | 579 | 1.08e-67 | 236 |
| Msa0943210 | AT5G24080.1 | 30.897 | 602 | 353 | 18 | 126 | 687 | 1 | 579 | 1.08e-67 | 236 |
| Msa0943210 | AT2G19130.1 | 30.189 | 689 | 392 | 27 | 41 | 692 | 39 | 675 | 4.99e-65 | 231 |
| Msa0943210 | AT5G35370.1 | 27.596 | 703 | 390 | 24 | 44 | 693 | 59 | 695 | 7.23e-65 | 231 |
| Msa0943210 | AT4G00340.2 | 30.344 | 669 | 367 | 25 | 47 | 688 | 40 | 636 | 1.52e-63 | 226 |
| Msa0943210 | AT4G21390.2 | 29.630 | 702 | 402 | 25 | 36 | 684 | 40 | 702 | 1.99e-63 | 225 |
| Msa0943210 | AT4G21390.1 | 29.630 | 702 | 402 | 25 | 36 | 684 | 40 | 702 | 3.89e-63 | 226 |
| Msa0943210 | AT4G00340.1 | 30.178 | 676 | 380 | 27 | 47 | 688 | 40 | 657 | 5.24e-63 | 225 |
Find 139 sgRNAs with CRISPR-Local
Find 318 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGATCACCTCTAGTTAA+TGG | 0.231262 | 6_3:+18654733 | Msa0943210:CDS |
| AAAGAATGGAAATTATGTAA+AGG | 0.503583 | 6_3:-18653514 | None:intergenic |
| AAAGGATTGGATTTGCTTTG+GGG | 0.544509 | 6_3:+18655325 | Msa0943210:CDS |
| AAAGTTTCCATTATCAAGCA+TGG | 0.505441 | 6_3:-18653870 | None:intergenic |
| AACAAGGATGGACTAGTATG+AGG | 0.547394 | 6_3:+18654338 | Msa0943210:CDS |
| AACCTCGTACTAGCACCAAC+AGG | 0.509463 | 6_3:+18653749 | Msa0943210:CDS |
| AAGAATGGAAATTATGTAAA+GGG | 0.432434 | 6_3:-18653513 | None:intergenic |
| AAGACAAGAGTTTCTCCTCT+TGG | 0.439949 | 6_3:+18654790 | Msa0943210:CDS |
| AAGACTGAGTTGCTAGCCAT+TGG | 0.483158 | 6_3:+18655165 | Msa0943210:CDS |
| AAGCATGAAGAAGTTTGCTG+TGG | 0.734508 | 6_3:-18653657 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TACATGATCAAACCATTGTT+TGG | + | chr6_3:18653699-18653718 | Msa0943210:CDS | 30.0% | |
| AAAGTTTCCATTATCAAGCA+TGG | - | chr6_3:18653873-18653892 | None:intergenic | 30.0% | |
| AGAGCAACACTTGATTATTA+TGG | + | chr6_3:18654274-18654293 | Msa0943210:CDS | 30.0% | |
| CACTGCTATATTCAATGAAA+TGG | + | chr6_3:18654381-18654400 | Msa0943210:CDS | 30.0% | |
| ATATTCAATGAAATGGGAAG+TGG | + | chr6_3:18654388-18654407 | Msa0943210:CDS | 30.0% | |
| CTATAATAGCTATTGTTCCA+TGG | + | chr6_3:18654420-18654439 | Msa0943210:CDS | 30.0% | |
| CTGTTCTTACTAATGTGAAT+TGG | + | chr6_3:18654596-18654615 | Msa0943210:CDS | 30.0% | |
| TGACATTCATGTTGAGAATA+AGG | - | chr6_3:18654649-18654668 | None:intergenic | 30.0% | |
| AAAAGATCACCTCTAGTTAA+TGG | + | chr6_3:18654733-18654752 | Msa0943210:CDS | 30.0% | |
| TGTCTTTAATAGCTTACTCT+TGG | + | chr6_3:18654897-18654916 | Msa0943210:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 18653497 | 18655578 | 18653497 | ID=Msa0943210;Name=Msa0943210 |
| chr6_3 | mRNA | 18653497 | 18655578 | 18653497 | ID=Msa0943210-mRNA-1;Parent=Msa0943210;Name=Msa0943210-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0|-1|0|1|-1|1|1|0|693 |
| chr6_3 | exon | 18653497 | 18655578 | 18653497 | ID=Msa0943210-mRNA-1:exon:5576;Parent=Msa0943210-mRNA-1 |
| chr6_3 | CDS | 18653497 | 18655578 | 18653497 | ID=Msa0943210-mRNA-1:cds;Parent=Msa0943210-mRNA-1 |
| Gene Sequence |
>Msa0943210 ATGGCTTCTTCCTCTACCCTTTACATAATTTCCATTCTTTTTCTTCAACTTGTGTTAGCCTTTGGAAACGTTTCTCCAAGTTCAAGACTCACCACCACTAACAACAACAACAATCCATGGTTATCACCTTCTGGTGAATTCGCTTTCGGATTCCGTAATACCACAGCAAACTTCTTCATGCTTGCAATATGGTACAACAACATACATGATCAAACCATTGTTTGGAGCGCCAAAGACATGAACAACAGCAGCAACCTCGTACTAGCACCAACAGGATCACATGTTCAGCTAACATCAGGTGGACTCACGTTGACAACTGCACAAAATGAATCCATTTGGACAGCACAACCAAACGATATTGTTTCCTATGGAACCATGCTTGATAATGGAAACTTTGTTCTTGTAAACAACAAATCTGTTATTGTTTGGGAAAGTTTTAACTTTCCTACTGACACCCTTTTGCCTAATCAATCGCTTGAGTTAGGCGCCACCTTAACTTCAAGATTCTCAGAGACCAATTTCACAAATGGAAGGTTCCAACTTTATTTTAATGATGATGGTCATAATCTCATGTTAAGTCCACTTGCATGGCCTACTCAATTTCGTTACAAATTTTACTATAGAATTGGTGTTAATAACTCTGCATCTTCAAGTTTAGTTTTTGATGAATTAGGAGATATTTATGTGGAAATTACAAATAATAATGGTACTGCTAGAATCAAACCTCAGGGTACACAATGGAAAAATTTAATTCTTGATCCAAAGTTGTATTATTATAGAGCAACACTTGATTATTATGGAGTTTTGACACAATATTCTCATCCAAGGGACACTAAAGCAAAACAAGGATGGACTAGTATGAGGTATGTTCCTGATAACATCTGCACTGCTATATTCAATGAAATGGGAAGTGGAACTTGTGGCTATAATAGCTATTGTTCCATGGAAAATCAGAGACCTAATTGTAGATGTCCTTATGGTTATTCATTGATAGATCCAAGTAATCAATTTGGCGGGTGTCAACTCAATTTCACACTTGGTTGTGGAGCTGATAATGGTGAAGGATTGAATGTGAAGCCAGAAGATTTATATGAGTTTACTGTTCTTACTAATGTGAATTGGCCATTAGCCGATTATGAACGGATGCAGCCTTATTCTCAACATGAATGTCAACAATCTTGTTTGCATGATTGTATGTGTTCTGTTGTTGTCTTCAGAGACCAAATATGTTGGAAGAAAAGATCACCTCTAGTTAATGGAAGAGAAGAAAGTGGTGGTGATTTAGTACTTATCAAGACAAGAGTTTCTCCTCTTGGTAAAATAGGTACTAGTCCTTCCAATAATTTGAATAAAGACAACCAAGTTAACCCGATTCTTCGAGGTCTACTAATTGGTTCAGCTGTCTTTAATAGCTTACTCTTGGCTGCAGTTGTTTTAGTGACTTTGTTGAAGCCGAAAAGGGTTGTCGTAGGCGCAACTCTCTTGGAAACAAATTTATGTTCGTTTAGTTATGACGCGTTAAAAGAAGCTACAAGGGGTTTTATTGAAGAACTAGGTAGAGGTTCCTTTGGAATTGTTTTCAAAGGTGAATTGAAAGCAGCAACGTCTTGTAATGTTGTTGCTGTTAAGAAATTGGATCGGTTAGCGCAAGATCGCGAGAAGGAATTTAAGACTGAGTTGCTAGCCATTGGTAAAACCAGCCACAAAAACTTGGTCAAGTTGATTGGATATTGTGATGAGGGAATGCATAGAATGTTGGTGTATGAGTTCATGAACAACGGCAGCCTTGCAAACATCTTGTTTGGACAAACAAAACCCACTTGGAATCAAAGGATTGGATTTGCTTTGGGGATTGCAAAAGGATTGGTGTATTTACATGAAGAGTGTGACACTCCCATCATTCATTGTGACATAAATGCTCAAAATATACTCATAGATGAGTACTTCACGGTGAAGATTTCTGACTTTGGATTGGCTAAATTGTTGTTGGCCGAACAAAGTAGAACCAAAACCATGATCCGAGGAACGCGAGGATATGTAGCTCCTGAATGGTTTAAGAATGTGATAAGTGCTAGGAAGTGA |
| Protein sequence |
>Msa0943210 MASSSTLYIISILFLQLVLAFGNVSPSSRLTTTNNNNNPWLSPSGEFAFGFRNTTANFFMLAIWYNNIHDQTIVWSAKDMNNSSNLVLAPTGSHVQLTSGGLTLTTAQNESIWTAQPNDIVSYGTMLDNGNFVLVNNKSVIVWESFNFPTDTLLPNQSLELGATLTSRFSETNFTNGRFQLYFNDDGHNLMLSPLAWPTQFRYKFYYRIGVNNSASSSLVFDELGDIYVEITNNNGTARIKPQGTQWKNLILDPKLYYYRATLDYYGVLTQYSHPRDTKAKQGWTSMRYVPDNICTAIFNEMGSGTCGYNSYCSMENQRPNCRCPYGYSLIDPSNQFGGCQLNFTLGCGADNGEGLNVKPEDLYEFTVLTNVNWPLADYERMQPYSQHECQQSCLHDCMCSVVVFRDQICWKKRSPLVNGREESGGDLVLIKTRVSPLGKIGTSPSNNLNKDNQVNPILRGLLIGSAVFNSLLLAAVVLVTLLKPKRVVVGATLLETNLCSFSYDALKEATRGFIEELGRGSFGIVFKGELKAATSCNVVAVKKLDRLAQDREKEFKTELLAIGKTSHKNLVKLIGYCDEGMHRMLVYEFMNNGSLANILFGQTKPTWNQRIGFALGIAKGLVYLHEECDTPIIHCDINAQNILIDEYFTVKISDFGLAKLLLAEQSRTKTMIRGTRGYVAPEWFKNVISARK* |
