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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0444440 | XP_039687783.1 | 84.779 | 565 | 80 | 2 | 1 | 559 | 1 | 565 | 0.0 | 970 |
| Msa0444440 | XP_039687783.1 | 90.214 | 562 | 43 | 2 | 1 | 559 | 840 | 1392 | 0.0 | 1053 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0444440 | sp|O81832|Y4729_ARATH | 43.009 | 565 | 274 | 8 | 1 | 559 | 1 | 523 | 1.64e-153 | 462 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0444440 | MtrunA17_Chr3g0084431 | 90.214 | 562 | 43 | 2 | 1 | 559 | 1 | 553 | 0.0 | 1051 |
| Msa0444440 | MtrunA17_Chr3g0084451 | 83.979 | 568 | 79 | 5 | 1 | 559 | 1 | 565 | 0.0 | 983 |
| Msa0444440 | MtrunA17_Chr3g0084441 | 84.779 | 565 | 80 | 2 | 1 | 559 | 1 | 565 | 0.0 | 971 |
| Msa0444440 | MtrunA17_Chr3g0084491 | 81.786 | 560 | 93 | 5 | 1 | 559 | 14 | 565 | 0.0 | 956 |
| Msa0444440 | MtrunA17_Chr3g0084691 | 76.701 | 588 | 106 | 5 | 1 | 559 | 1 | 586 | 0.0 | 922 |
| Msa0444440 | MtrunA17_Chr3g0084411 | 77.936 | 562 | 117 | 3 | 1 | 559 | 1 | 558 | 0.0 | 916 |
| Msa0444440 | MtrunA17_Chr3g0084621 | 78.191 | 564 | 116 | 4 | 1 | 559 | 1 | 562 | 0.0 | 905 |
| Msa0444440 | MtrunA17_Chr3g0084421 | 83.268 | 508 | 82 | 1 | 55 | 559 | 14 | 521 | 0.0 | 880 |
| Msa0444440 | MtrunA17_Chr3g0084681 | 74.733 | 562 | 100 | 2 | 1 | 559 | 1 | 523 | 0.0 | 869 |
| Msa0444440 | MtrunA17_Chr3g0098791 | 75.132 | 567 | 127 | 6 | 1 | 559 | 1 | 561 | 0.0 | 867 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0444440 | AT4G27290.2 | 43.130 | 575 | 305 | 8 | 1 | 559 | 1 | 569 | 1.59e-158 | 474 |
| Msa0444440 | AT4G27290.1 | 43.009 | 565 | 274 | 8 | 1 | 559 | 1 | 523 | 1.67e-154 | 462 |
| Msa0444440 | AT4G21380.2 | 40.665 | 541 | 294 | 9 | 42 | 557 | 44 | 582 | 2.70e-140 | 420 |
| Msa0444440 | AT4G21380.1 | 40.665 | 541 | 294 | 9 | 42 | 557 | 44 | 582 | 1.66e-137 | 420 |
| Msa0444440 | AT1G65790.3 | 40.445 | 539 | 291 | 8 | 43 | 557 | 43 | 575 | 1.82e-132 | 400 |
| Msa0444440 | AT1G65790.2 | 40.445 | 539 | 291 | 8 | 43 | 557 | 43 | 575 | 1.82e-132 | 400 |
| Msa0444440 | AT1G65790.1 | 40.445 | 539 | 291 | 8 | 43 | 557 | 43 | 575 | 7.10e-130 | 400 |
| Msa0444440 | AT1G11340.2 | 39.130 | 552 | 310 | 8 | 31 | 557 | 89 | 639 | 1.16e-125 | 387 |
| Msa0444440 | AT1G11340.3 | 39.130 | 552 | 310 | 8 | 31 | 557 | 89 | 639 | 3.72e-125 | 387 |
| Msa0444440 | AT1G11340.1 | 39.130 | 552 | 310 | 8 | 31 | 557 | 21 | 571 | 1.16e-124 | 386 |
Find 119 sgRNAs with CRISPR-Local
Find 314 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATAAGATGCTACTGCTAA+TGG | 0.383377 | 3_3:-17393837 | Msa0444440:CDS |
| AACATCGAGACAAGGATCCG+AGG | 0.673668 | 3_3:-17391619 | Msa0444440:CDS |
| AACCACGATACCGACGTGTC+TGG | 0.433049 | 3_3:+17392774 | None:intergenic |
| AACCCTCAAGATCCTGCTGA+AGG | 0.581122 | 3_3:-17393302 | Msa0444440:CDS |
| AACGTTTCCAATGGTCAGAT+AGG | 0.585927 | 3_3:-17393037 | Msa0444440:CDS |
| AACTGTTCAAAGTTTCATAT+TGG | 0.311587 | 3_3:+17393102 | None:intergenic |
| AAGATAGGAGAAGGTGGTTA+TGG | 0.370796 | 3_3:-17391818 | Msa0444440:CDS |
| AAGCGTGTTCGGACTGTTGC+AGG | 0.317547 | 3_3:-17392200 | Msa0444440:CDS |
| AATAGAAATAAGATAGGAGA+AGG | 0.565681 | 3_3:-17391827 | Msa0444440:CDS |
| AATTTAGATATCAGAGATGG+TGG | 0.567543 | 3_3:-17392681 | Msa0444440:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACAAACTCACACAAACATAA+TGG | - | chr3_3:17388761-17388780 | Msa0444440:intron | 30.0% | |
| AAATAAGATGCTACTGCTAA+TGG | - | chr3_3:17388791-17388810 | Msa0444440:intron | 30.0% | |
| CCAAATCAGTTTATGCAATT+CGG | - | chr3_3:17388879-17388898 | Msa0444440:intron | 30.0% | |
| CAAGATGTGAGATATCTATA+TGG | + | chr3_3:17389302-17389321 | None:intergenic | 30.0% | |
| CATATAGATATCTCACATCT+TGG | - | chr3_3:17389300-17389319 | Msa0444440:intron | 30.0% | |
| TTTCATGCCAAAATTTCAAC+CGG | - | chr3_3:17389733-17389752 | Msa0444440:intron | 30.0% | |
| ACACATTTAAATTGTCTCCA+TGG | - | chr3_3:17389797-17389816 | Msa0444440:intron | 30.0% | |
| GCAAATTTAGATATCAGAGA+TGG | - | chr3_3:17389944-17389963 | Msa0444440:intron | 30.0% | |
| AATTTAGATATCAGAGATGG+TGG | - | chr3_3:17389947-17389966 | Msa0444440:intron | 30.0% | |
| ATTTAGATATCAGAGATGGT+GGG | - | chr3_3:17389948-17389967 | Msa0444440:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 17388734 | 17393916 | 17388734 | ID=Msa0444440;Name=Msa0444440 |
| chr3_3 | mRNA | 17388734 | 17393916 | 17388734 | ID=Msa0444440-mRNA-1;Parent=Msa0444440;Name=Msa0444440-mRNA-1;_AED=0.30;_eAED=0.30;_QI=46|0.75|0.6|0.8|0.75|0.8|5|0|571 |
| chr3_3 | exon | 17388734 | 17388778 | 17388734 | ID=Msa0444440-mRNA-1:exon:3728;Parent=Msa0444440-mRNA-1 |
| chr3_3 | exon | 17391569 | 17391688 | 17391569 | ID=Msa0444440-mRNA-1:exon:3727;Parent=Msa0444440-mRNA-1 |
| chr3_3 | exon | 17391805 | 17391950 | 17391805 | ID=Msa0444440-mRNA-1:exon:3726;Parent=Msa0444440-mRNA-1 |
| chr3_3 | exon | 17392132 | 17392248 | 17392132 | ID=Msa0444440-mRNA-1:exon:3725;Parent=Msa0444440-mRNA-1 |
| chr3_3 | exon | 17392583 | 17393916 | 17392583 | ID=Msa0444440-mRNA-1:exon:3724;Parent=Msa0444440-mRNA-1 |
| chr3_3 | five_prime_UTR | 17393871 | 17393916 | 17393871 | ID=Msa0444440-mRNA-1:five_prime_utr;Parent=Msa0444440-mRNA-1 |
| chr3_3 | CDS | 17392583 | 17393870 | 17392583 | ID=Msa0444440-mRNA-1:cds;Parent=Msa0444440-mRNA-1 |
| chr3_3 | CDS | 17392132 | 17392248 | 17392132 | ID=Msa0444440-mRNA-1:cds;Parent=Msa0444440-mRNA-1 |
| chr3_3 | CDS | 17391805 | 17391950 | 17391805 | ID=Msa0444440-mRNA-1:cds;Parent=Msa0444440-mRNA-1 |
| chr3_3 | CDS | 17391569 | 17391688 | 17391569 | ID=Msa0444440-mRNA-1:cds;Parent=Msa0444440-mRNA-1 |
| chr3_3 | CDS | 17388734 | 17388778 | 17388734 | ID=Msa0444440-mRNA-1:cds;Parent=Msa0444440-mRNA-1 |
| Gene Sequence |
>Msa0444440 ATGGAGAACCAAAATAAGATGCTACTGCTAATGGTGTATACTTTCTTATTTTGCTCCATGCTCACTTTCTCTACACAGAACACTTTTACTACTATTGCTCCAAATCAGTTTATGCAATTCGGTGATACTCTTGTTTCTGGAACTGGAAGGTTTGAAGCAGGATTTTTCAACTTTGGAGATTCACAGCGCCAATACTTCGGTATATGGTACAAGAACATATCACCAAGGACTATTGTGTGGGTTGCCAATAGAAATATTCCTACACAGAACTCAACAGCAATGCTGAAACTTAACGATCAAGGAAGTCTTGTTATTCTTGATGGTTCTAAAGGTGTCATATGGAACTCCAATTCATCAAGAATTGCGGCGGTGAAATCAGTTACTGTGAAGCTGTTGGATTCAGGAAACCTTGTTGTGAAAGATGCAAACAGCACTCAGAACTTTTTCTGGGAAAGTTTTGACTATCCTGGTAACACTTTCCTTGCTGGAATGAAGCTTAAAAGTAATTTAGTTACTGGTCCATATAGATATCTCACATCTTGGAAAAACCCTCAAGATCCTGCTGAAGGTGAGTGTTCATATAAGATAGATACACATGGTTTTCCTCAACTGGTTACTACAAAGGGAGCAAAAGTTCTGTATAGAGGAGGGTCATGGAATGGATTTCTTTTCACTGGTGTTTCTTGGCAAAGACTGCATAGAGTCTTGAATTTCTCAGTAGTAGTCACCGACAAAGAATTATCTTACCAATATGAAACTTTGAACAGTTCAATTAATACTAGATTGGTGCTAGATCAATACGGAACTTCACAACGTTTCCAATGGTCAGATAGGACACAAATTTGGGAGGCTATATCTTCTCGTCCTGCAGACCAGTGTGATGCGTATGACTTGTGTGGTATCAATTCTAACTGCAATGGTGACATGTTTCCAATATGTGAATGCTTGGAAGGTTTCATGCCAAAATTTCAACCGGAGTGGGATTTGTCAAATTGGTCTGGTGGGTGTGTAAGGAAAACACATTTAAATTGTCTCCATGGAGATGGATTTTTACCGTACACAAACATGAAGTTGCCAGACACGTCGGTATCGTGGTTTAACAAGAGCCTGAGCCTCAAGGAATGTAAGACAATGTGTTTGAAAAACTGTTCTTGCACTGCATATGCAAATTTAGATATCAGAGATGGTGGGAGTGGCTGCTTACTTTGGTTTGACAACATTGTCGACATGAGAAAACATCCGGACCTAGGACAAGACATATACATACGGCTGGCATCAGCAGAACTTGATCATAGAAAGAATGCGAGAAACTTGAAGCGTGTTCGGACTGTTGCAGGAGTTATTGCATTCATTATAGGACTATCTGTTCTTGTAATGGTCACATCAGCATATAGAAAGAAGCATGGGTATATAAAAAAGTTATTTCACAAGAAGGAGAAGGAAGATGGTGACTTGGCAACAATATTTGATTTCTCCACCATCACCAATGCAACAAACCACTTCTCTAATAGAAATAAGATAGGAGAAGGTGGTTATGGACAAGTGTACAAGGGTATAATGCTAGATGGCCAAGAGATTGCTGTTAAGAGGCTTTCTAAAACATCGAGACAAGGATCCGAGGAGTTCAAAAATGAAGTAAAGATGATGGCAACACTTCAACACCGTAATCTACGGAAAGATTTCATAACTCTGAACAATGGCTCCGCATTTTCTTAG |
| Protein sequence |
>Msa0444440 MENQNKMLLLMVYTFLFCSMLTFSTQNTFTTIAPNQFMQFGDTLVSGTGRFEAGFFNFGDSQRQYFGIWYKNISPRTIVWVANRNIPTQNSTAMLKLNDQGSLVILDGSKGVIWNSNSSRIAAVKSVTVKLLDSGNLVVKDANSTQNFFWESFDYPGNTFLAGMKLKSNLVTGPYRYLTSWKNPQDPAEGECSYKIDTHGFPQLVTTKGAKVLYRGGSWNGFLFTGVSWQRLHRVLNFSVVVTDKELSYQYETLNSSINTRLVLDQYGTSQRFQWSDRTQIWEAISSRPADQCDAYDLCGINSNCNGDMFPICECLEGFMPKFQPEWDLSNWSGGCVRKTHLNCLHGDGFLPYTNMKLPDTSVSWFNKSLSLKECKTMCLKNCSCTAYANLDIRDGGSGCLLWFDNIVDMRKHPDLGQDIYIRLASAELDHRKNARNLKRVRTVAGVIAFIIGLSVLVMVTSAYRKKHGYIKKLFHKKEKEDGDLATIFDFSTITNATNHFSNRNKIGEGGYGQVYKGIMLDGQEIAVKRLSKTSRQGSEEFKNEVKMMATLQHRNLRKDFITLNNGSAFS* |
