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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0379950 | XP_003602921.2 | 91.849 | 503 | 31 | 3 | 1 | 500 | 1 | 496 | 0.0 | 953 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0379950 | sp|Q9C7Z9|SCP18_ARATH | 54.167 | 456 | 189 | 6 | 48 | 500 | 26 | 464 | 1.94e-173 | 499 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0379950 | 0.830507 | 2.824881e-55 | -8.615850e-47 |
| Msa0000610 | Msa0379950 | 0.813922 | 2.003031e-51 | -8.615850e-47 |
| Msa0001040 | Msa0379950 | 0.812318 | 4.502817e-51 | -8.615850e-47 |
| Msa0001510 | Msa0379950 | 0.854602 | 1.103765e-61 | -8.615850e-47 |
| Msa0002110 | Msa0379950 | 0.816932 | 4.285377e-52 | -8.615850e-47 |
| Msa0002690 | Msa0379950 | 0.848558 | 5.678607e-60 | -8.615850e-47 |
| Msa0002700 | Msa0379950 | 0.848052 | 7.832916e-60 | -8.615850e-47 |
| Msa0003340 | Msa0379950 | 0.852498 | 4.436766e-61 | -8.615850e-47 |
| Msa0004180 | Msa0379950 | 0.860631 | 1.805347e-63 | -8.615850e-47 |
| Msa0005190 | Msa0379950 | 0.827261 | 1.724555e-54 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0379950 | MtrunA17_Chr3g0133011 | 91.849 | 503 | 31 | 3 | 1 | 500 | 1 | 496 | 0.0 | 953 |
| Msa0379950 | MtrunA17_Chr2g0285351 | 66.597 | 476 | 141 | 6 | 26 | 500 | 11 | 469 | 0.0 | 641 |
| Msa0379950 | MtrunA17_Chr2g0285371 | 66.450 | 462 | 140 | 6 | 40 | 500 | 22 | 469 | 0.0 | 627 |
| Msa0379950 | MtrunA17_Chr2g0285381 | 64.009 | 464 | 143 | 8 | 39 | 500 | 24 | 465 | 0.0 | 595 |
| Msa0379950 | MtrunA17_Chr4g0009701 | 62.444 | 450 | 150 | 6 | 51 | 500 | 40 | 470 | 0.0 | 582 |
| Msa0379950 | MtrunA17_Chr4g0009681 | 59.916 | 474 | 169 | 7 | 27 | 500 | 15 | 467 | 0.0 | 576 |
| Msa0379950 | MtrunA17_Chr4g0009711 | 56.653 | 496 | 181 | 8 | 5 | 500 | 9 | 470 | 0.0 | 563 |
| Msa0379950 | MtrunA17_Chr4g0009661 | 59.111 | 450 | 165 | 6 | 51 | 500 | 40 | 470 | 0.0 | 558 |
| Msa0379950 | MtrunA17_Chr4g0009651 | 58.889 | 450 | 166 | 6 | 51 | 500 | 40 | 470 | 0.0 | 557 |
| Msa0379950 | MtrunA17_Chr4g0009671 | 59.101 | 445 | 161 | 7 | 57 | 500 | 11 | 435 | 0.0 | 543 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0379950 | AT1G33540.1 | 54.167 | 456 | 189 | 6 | 48 | 500 | 26 | 464 | 1.97e-174 | 499 |
| Msa0379950 | AT5G09640.1 | 53.653 | 479 | 198 | 9 | 27 | 500 | 6 | 465 | 2.48e-173 | 496 |
| Msa0379950 | AT3G10450.1 | 52.851 | 456 | 174 | 4 | 45 | 500 | 23 | 437 | 1.31e-169 | 486 |
| Msa0379950 | AT1G73300.1 | 54.305 | 453 | 166 | 4 | 48 | 500 | 30 | 441 | 2.82e-169 | 485 |
| Msa0379950 | AT1G73300.2 | 54.305 | 453 | 166 | 4 | 48 | 500 | 30 | 441 | 2.82e-169 | 485 |
| Msa0379950 | AT2G22920.2 | 53.304 | 454 | 169 | 5 | 49 | 500 | 23 | 435 | 8.48e-169 | 484 |
| Msa0379950 | AT2G23000.1 | 53.437 | 451 | 173 | 7 | 50 | 500 | 24 | 437 | 1.10e-166 | 478 |
| Msa0379950 | AT2G23000.2 | 53.437 | 451 | 173 | 7 | 50 | 500 | 24 | 437 | 1.10e-166 | 478 |
| Msa0379950 | AT5G36180.1 | 54.084 | 453 | 167 | 4 | 48 | 500 | 30 | 441 | 1.46e-166 | 478 |
| Msa0379950 | AT1G73280.1 | 51.754 | 456 | 179 | 4 | 45 | 500 | 27 | 441 | 1.52e-165 | 476 |
Find 149 sgRNAs with CRISPR-Local
Find 644 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATAGTAGAACAATTCCG+CGG | 0.712968 | 3_1:+81403524 | None:intergenic |
| AAATCACATATACAATGGTA+TGG | 0.445331 | 3_1:+81393567 | None:intergenic |
| AAATTTCTTGAACGATAATT+GGG | 0.406294 | 3_1:+81401730 | None:intergenic |
| AACAAGATCCTCTCTTGCTT+TGG | 0.366863 | 3_1:-81403479 | Msa0379950:CDS |
| AACAGGGAAGAGAAGTGGTG+TGG | 0.668685 | 3_1:-81403812 | Msa0379950:five_prime_UTR |
| AAGAAGTCTCCTCCTACCAT+TGG | 0.539846 | 3_1:+81397360 | None:intergenic |
| AATAGCATTTAATCATGGCA+TGG | 0.545622 | 3_1:-81398974 | Msa0379950:CDS |
| AATATAGGAGCAAGTTCATT+TGG | 0.380072 | 3_1:-81394111 | Msa0379950:three_prime_UTR |
| AATATTGTAAAATTCCTTCC+TGG | 0.368687 | 3_1:-81403621 | Msa0379950:CDS |
| AATCACATATACAATGGTAT+GGG | 0.557537 | 3_1:+81393568 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATTGAGATGTTGCAAAAACA+AGG | + | chr3_1:81393795-81393814 | None:intergenic | 30.0% | |
| AAAATAGTAGAACAATTCCG+CGG | + | chr3_1:81393917-81393936 | None:intergenic | 30.0% | |
| ACATTCGATGGAAAAACATT+GGG | + | chr3_1:81394065-81394084 | None:intergenic | 30.0% | |
| AACTTCTTGGAATATTTGGT+TGG | + | chr3_1:81394876-81394895 | None:intergenic | 30.0% | |
| CAGTAACTTCTTGGAATATT+TGG | + | chr3_1:81394880-81394899 | None:intergenic | 30.0% | |
| CAAATATTCCAAGAAGTTAC+TGG | - | chr3_1:81394878-81394897 | Msa0379950:intron | 30.0% | |
| AAATATGACCAGTAACTTCT+TGG | + | chr3_1:81394889-81394908 | None:intergenic | 30.0% | |
| GATATTTATCATGGCTCAAT+TGG | + | chr3_1:81395063-81395082 | None:intergenic | 30.0% | |
| GTGCTAAAGTTAAGGAAATT+TGG | + | chr3_1:81395089-81395108 | None:intergenic | 30.0% | |
| TTTCACTTGTGCTAAAGTTA+AGG | + | chr3_1:81395097-81395116 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 81393528 | 81403932 | 81393528 | ID=Msa0379950;Name=Msa0379950 |
| chr3_1 | mRNA | 81393528 | 81403932 | 81393528 | ID=Msa0379950-mRNA-1;Parent=Msa0379950;Name=Msa0379950-mRNA-1;_AED=0.29;_eAED=0.29;_QI=145|0.92|0.93|1|0.85|0.8|15|418|500 |
| chr3_1 | exon | 81393528 | 81393620 | 81393528 | ID=Msa0379950-mRNA-1:exon:20695;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81393641 | 81393672 | 81393641 | ID=Msa0379950-mRNA-1:exon:20694;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81393905 | 81394281 | 81393905 | ID=Msa0379950-mRNA-1:exon:20693;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81394381 | 81394426 | 81394381 | ID=Msa0379950-mRNA-1:exon:20692;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81394517 | 81394630 | 81394517 | ID=Msa0379950-mRNA-1:exon:20691;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81394770 | 81394888 | 81394770 | ID=Msa0379950-mRNA-1:exon:20690;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81395527 | 81395598 | 81395527 | ID=Msa0379950-mRNA-1:exon:20689;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81397300 | 81397455 | 81397300 | ID=Msa0379950-mRNA-1:exon:20688;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81398716 | 81398802 | 81398716 | ID=Msa0379950-mRNA-1:exon:20687;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81398948 | 81399049 | 81398948 | ID=Msa0379950-mRNA-1:exon:20686;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81401386 | 81401423 | 81401386 | ID=Msa0379950-mRNA-1:exon:20685;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81401703 | 81401826 | 81401703 | ID=Msa0379950-mRNA-1:exon:20684;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81402038 | 81402160 | 81402038 | ID=Msa0379950-mRNA-1:exon:20683;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81402874 | 81402950 | 81402874 | ID=Msa0379950-mRNA-1:exon:20682;Parent=Msa0379950-mRNA-1 |
| chr3_1 | exon | 81403427 | 81403932 | 81403427 | ID=Msa0379950-mRNA-1:exon:20681;Parent=Msa0379950-mRNA-1 |
| chr3_1 | five_prime_UTR | 81403788 | 81403932 | 81403788 | ID=Msa0379950-mRNA-1:five_prime_utr;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81403427 | 81403787 | 81403427 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81402874 | 81402950 | 81402874 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81402038 | 81402160 | 81402038 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81401703 | 81401826 | 81401703 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81401386 | 81401423 | 81401386 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81398948 | 81399049 | 81398948 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81398716 | 81398802 | 81398716 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81397300 | 81397455 | 81397300 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81395527 | 81395598 | 81395527 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81394770 | 81394888 | 81394770 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81394517 | 81394630 | 81394517 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81394381 | 81394426 | 81394381 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | CDS | 81394198 | 81394281 | 81394198 | ID=Msa0379950-mRNA-1:cds;Parent=Msa0379950-mRNA-1 |
| chr3_1 | three_prime_UTR | 81393905 | 81394197 | 81393905 | ID=Msa0379950-mRNA-1:three_prime_utr;Parent=Msa0379950-mRNA-1 |
| chr3_1 | three_prime_UTR | 81393641 | 81393672 | 81393641 | ID=Msa0379950-mRNA-1:three_prime_utr;Parent=Msa0379950-mRNA-1 |
| chr3_1 | three_prime_UTR | 81393528 | 81393620 | 81393528 | ID=Msa0379950-mRNA-1:three_prime_utr;Parent=Msa0379950-mRNA-1 |
| Gene Sequence |
>Msa0379950 ATGGCAATGCTTAGGCATAGTTCACATCACAGTGGTGACATTATTATTACTAGAACCTTGTTTAAGATGATTATAATATTTGTTATAGCATTCCTATTGTTACAAAATTCATCCACCAACCTTGTTTTTGCAACATCTCAATCCAATATTGTAAAATTCCTTCCTGGTTTTCAAGGACCCCTTCCCTTTGTACTAGAAACTGGGTACGTGGGAGTGGGTGAAACTGAAACAGATGAAATTGCCGCGGAATTGTTCTACTATTTTATAGAATCTGAGAATAATCCTAAACAAGATCCTCTCTTGCTTTGGTTAACCGGTGGTCCTGGTTGCTCTGCTTTCTCTGGCCTTGCCTTTGAAATAGGTCCAATAACATTTAAAAATGAGGAATACAACGGGAGCTTACCAAATTTGATCTTGAGGCCACATTCATGGACAAAGGTAAGTAATATTATATTTTTGGATTTGCCTGTGGGCACTGGATTCTCTTATCCCAAAACAGAAAGTGCTGCTCAGCAAAGCACTTGGAAGCTAGTTCACAATGCTCATCAATTTCTTAGGAAGTGGCTCATGGATCATCCAAAATTTATCTCAAATGAAGTGTACATTGCTGGTGACTCATACTCAGGCATTCCCGTCCCAATTATCGTTCAAGAAATTTCATATGGTACCATGCTCACAATGACTGGAAATGAAGGTGGTCTTCAACCGTGGATAAACCTCCAGGGATACATATTAGGAAATCCCGTAACTTGGCCAGCTCACGATGATAATTACAGAATAGCATTTAATCATGGCATGGGACTTATTTCTAATGAACTCTACGAGTCATTGCAAAAGAACTGTAGAGGTGAGTATAAAAATATAGATCCCCAAAATGTATTTTGTCTAGAAGACATCCAGTCCTATCAAGAGACTATTTCAGGAGTTTCTGAAGTTCATATTTTGGAACCGAAATGCGAGTTTGGTTTGCCTAATCCAATGGAAGCCAATGGTAGGAGGAGACTTCTTATTCACAAGGCCAACCCTATCTTTACTTCTTCTCTTACATTGCCACCTTTATACTGTCGGACTCATGCATATTTCCTCGGTGCCTATTGGGCCAACGACGCTAATGTTCACCATGCACTGCACATTCGAAAGGGAAGTATAGGAAAATGGAAGCGTTGTAACTTTGACATACCTTTCAAGCACGAAATAGTTAACAGCTTTGAGTATCATGTAAATCTTAGCAGAAAAGGTTATCGTTCATTAATATACAGTGGGGATCATGACATGAAAGTTCCATTTTTGGCAACTCAAGCGTGGATAAGATCTTTAAACTATTCCATCGTTGATGATTGGAGGCAGTGGTATTCTAATTCTCAAGTAGCAGGATACACAAGGACTTACTCAAATCGGATGACATTTGCAACTGTGAAGGGAGGAGGACATACGGCTCCCGAGTACAAACGTGAAGAATGCTTAGCCATGTTCAGTAGGTGGATATCTAATTACCCACTCTAG |
| Protein sequence |
>Msa0379950 MAMLRHSSHHSGDIIITRTLFKMIIIFVIAFLLLQNSSTNLVFATSQSNIVKFLPGFQGPLPFVLETGYVGVGETETDEIAAELFYYFIESENNPKQDPLLLWLTGGPGCSAFSGLAFEIGPITFKNEEYNGSLPNLILRPHSWTKVSNIIFLDLPVGTGFSYPKTESAAQQSTWKLVHNAHQFLRKWLMDHPKFISNEVYIAGDSYSGIPVPIIVQEISYGTMLTMTGNEGGLQPWINLQGYILGNPVTWPAHDDNYRIAFNHGMGLISNELYESLQKNCRGEYKNIDPQNVFCLEDIQSYQETISGVSEVHILEPKCEFGLPNPMEANGRRRLLIHKANPIFTSSLTLPPLYCRTHAYFLGAYWANDANVHHALHIRKGSIGKWKRCNFDIPFKHEIVNSFEYHVNLSRKGYRSLIYSGDHDMKVPFLATQAWIRSLNYSIVDDWRQWYSNSQVAGYTRTYSNRMTFATVKGGGHTAPEYKREECLAMFSRWISNYPL* |
