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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0970400 | XP_013450752.1 | 96.785 | 622 | 19 | 1 | 1 | 621 | 1 | 622 | 0.0 | 1246 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0970400 | sp|P15792|KPK1_PHAVU | 74.132 | 634 | 126 | 12 | 1 | 625 | 1 | 605 | 0.0 | 891 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0970400 | A0A072UG73 | 96.785 | 622 | 19 | 1 | 1 | 621 | 1 | 622 | 0.0 | 1246 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0970400 | Msa1379470 | 0.878171 | 3.485766e-69 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0970400 | MtrunA17_Chr6g0449401 | 91.351 | 659 | 19 | 2 | 1 | 621 | 13 | 671 | 0.0 | 1209 |
| Msa0970400 | MtrunA17_Chr7g0227331 | 68.858 | 639 | 160 | 14 | 1 | 625 | 1 | 614 | 0.0 | 818 |
| Msa0970400 | MtrunA17_Chr2g0290691 | 72.210 | 457 | 118 | 3 | 159 | 607 | 113 | 568 | 0.0 | 695 |
| Msa0970400 | MtrunA17_Chr7g0250631 | 63.768 | 483 | 161 | 6 | 148 | 618 | 255 | 735 | 0.0 | 618 |
| Msa0970400 | MtrunA17_Chr8g0335351 | 66.667 | 462 | 142 | 6 | 148 | 599 | 261 | 720 | 0.0 | 610 |
| Msa0970400 | MtrunA17_Chr1g0179101 | 64.165 | 413 | 140 | 4 | 192 | 600 | 413 | 821 | 0.0 | 544 |
| Msa0970400 | MtrunA17_Chr7g0266031 | 59.436 | 461 | 174 | 6 | 148 | 600 | 388 | 843 | 0.0 | 544 |
| Msa0970400 | MtrunA17_Chr8g0356291 | 61.962 | 418 | 149 | 6 | 189 | 600 | 65 | 478 | 1.20e-177 | 514 |
| Msa0970400 | MtrunA17_Chr3g0080101 | 58.613 | 447 | 163 | 7 | 163 | 601 | 337 | 769 | 1.59e-177 | 524 |
| Msa0970400 | MtrunA17_Chr2g0309421 | 61.940 | 402 | 142 | 5 | 204 | 600 | 131 | 526 | 8.54e-176 | 511 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0970400 | AT5G47750.1 | 70.253 | 474 | 124 | 5 | 159 | 617 | 98 | 569 | 0.0 | 675 |
| Msa0970400 | AT4G26610.1 | 72.210 | 457 | 120 | 5 | 148 | 601 | 22 | 474 | 0.0 | 664 |
| Msa0970400 | AT5G55910.2 | 70.450 | 467 | 127 | 5 | 151 | 611 | 13 | 474 | 0.0 | 652 |
| Msa0970400 | AT5G55910.1 | 70.450 | 467 | 127 | 5 | 151 | 611 | 13 | 474 | 0.0 | 652 |
| Msa0970400 | AT3G27580.2 | 69.895 | 475 | 120 | 6 | 140 | 606 | 80 | 539 | 0.0 | 647 |
| Msa0970400 | AT3G27580.1 | 69.895 | 475 | 120 | 6 | 140 | 606 | 80 | 539 | 0.0 | 647 |
| Msa0970400 | AT2G44830.2 | 65.463 | 443 | 141 | 8 | 192 | 628 | 303 | 739 | 0.0 | 584 |
| Msa0970400 | AT2G44830.3 | 65.463 | 443 | 141 | 8 | 192 | 628 | 303 | 739 | 0.0 | 584 |
| Msa0970400 | AT2G44830.1 | 65.463 | 443 | 141 | 8 | 192 | 628 | 303 | 739 | 0.0 | 584 |
| Msa0970400 | AT5G40030.1 | 66.667 | 384 | 113 | 6 | 225 | 601 | 86 | 461 | 0.0 | 538 |
Find 134 sgRNAs with CRISPR-Local
Find 229 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAAACTAAGACAACTT+AGG | 0.515460 | 6_4:-1916951 | None:intergenic |
| AACTCAACTGAAAATGAAGT+TGG | 0.456517 | 6_4:+1916285 | Msa0970400:CDS |
| AACTCGTAAGAAGCTACTAA+GGG | 0.627316 | 6_4:+1914548 | Msa0970400:CDS |
| AAGAAACAATGAAAGGTTGC+CGG | 0.455081 | 6_4:+1913939 | Msa0970400:CDS |
| AAGCTGACAGTAGGAGATTC+TGG | 0.319263 | 6_4:-1916087 | None:intergenic |
| AAGCTGTCCGAGCTCGCGAG+GGG | 0.618922 | 6_4:+1914394 | Msa0970400:CDS |
| AAGGGAGGCCGCGAAGAACG+GGG | 0.663699 | 6_4:-1913781 | None:intergenic |
| AATGTGTTGGTGAGAGAAGA+CGG | 0.638684 | 6_4:+1915604 | Msa0970400:CDS |
| ACAGCCTTCCTATAACATCA+GGG | 0.679147 | 6_4:+1913755 | Msa0970400:CDS |
| ACCACGATGTTTAATGTTGT+TGG | 0.384486 | 6_4:+1916048 | Msa0970400:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCTTTGTTCCAAAAAAGATC+TGG | - | chr6_4:1913839-1913858 | None:intergenic | 30.0% | |
| TAACTACATAGCTGTTTAGA+TGG | - | chr6_4:1913897-1913916 | None:intergenic | 30.0% | |
| ATCACGAAAGAAACAATGAA+AGG | + | chr6_4:1913932-1913951 | Msa0970400:CDS | 30.0% | |
| ATTCTTCGGTTGATTAACAA+CGG | - | chr6_4:1914070-1914089 | None:intergenic | 30.0% | |
| GACTGAGAATAGTAATTCTT+CGG | - | chr6_4:1914084-1914103 | None:intergenic | 30.0% | |
| TGCTTTGTATAAACCTCATA+AGG | + | chr6_4:1914344-1914363 | Msa0970400:CDS | 30.0% | |
| CTTATATCATTTGCCTTATG+AGG | - | chr6_4:1914360-1914379 | None:intergenic | 30.0% | |
| TTGATACATGTCTTCTTGTA+AGG | - | chr6_4:1914759-1914778 | None:intergenic | 30.0% | |
| GTAATTTATTTAGCCCTGTT+TGG | + | chr6_4:1914917-1914936 | Msa0970400:intron | 30.0% | |
| TATCTTATGAAAAGCTCAGT+TGG | - | chr6_4:1914984-1915003 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 1913682 | 1916965 | 1913682 | ID=Msa0970400;Name=Msa0970400 |
| chr6_4 | mRNA | 1913682 | 1916965 | 1913682 | ID=Msa0970400-mRNA-1;Parent=Msa0970400;Name=Msa0970400-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0|0|0|0.66|1|1|3|0|640 |
| chr6_4 | exon | 1913682 | 1914745 | 1913682 | ID=Msa0970400-mRNA-1:exon:912;Parent=Msa0970400-mRNA-1 |
| chr6_4 | exon | 1915525 | 1916321 | 1915525 | ID=Msa0970400-mRNA-1:exon:913;Parent=Msa0970400-mRNA-1 |
| chr6_4 | exon | 1916904 | 1916965 | 1916904 | ID=Msa0970400-mRNA-1:exon:914;Parent=Msa0970400-mRNA-1 |
| chr6_4 | CDS | 1913682 | 1914745 | 1913682 | ID=Msa0970400-mRNA-1:cds;Parent=Msa0970400-mRNA-1 |
| chr6_4 | CDS | 1915525 | 1916321 | 1915525 | ID=Msa0970400-mRNA-1:cds;Parent=Msa0970400-mRNA-1 |
| chr6_4 | CDS | 1916904 | 1916965 | 1916904 | ID=Msa0970400-mRNA-1:cds;Parent=Msa0970400-mRNA-1 |
| Gene Sequence |
>Msa0970400 ATGGAGTCTCCTATGACTGCAGTTGAAACTATTGCAGAGGTTCAGAATTCAGTTTCTGAGGTACCGATACGCCACAGCCTTCCTATAACATCAGGGATTCCCCGTTCTTCGCGGCCTCCCTTATATAGAAATAATCAAGGAGCTTCTTCTTCTTCCAGATCTTTTTTGGAACAAAGACATTATCATCATAATTATGGAACAAAGAAGATTCACCATCTAAACAGCTATGTAGTTAATCAAAAGCATTCATATCACGAAAGAAACAATGAAAGGTTGCCGGCAAAATTATGCAGCAAGCAACTGTTTGATGATGATTCTGAGAATTTTGACTCAAGTTCTGAAGTATTAGAATCTGACAATAGTATCTTAGTTCCATCGAAACGAGCCGTTGTTAATCAACCGAAGAATTACTATTCTCAGTCAGAGACTAGTTTTTGTCCTAGTCCTCAGAACAGTTACTATTCAGCCACCGTCTATTCGGAAGCGAAACAAAGTTTCACAAGTACTGAAGTCAGTGAGTGTGTGAGTGTTGATGGTAAGTCGTGTGAGAGCGGAGAAGTTCCGAATTTCAGTGATTTTAATGAGAGTAGGAAAACCAGTATCTGTAGAGCGAGTACCGGAAGTGATGTTAGCGATGAAAGCAACACAAGTAGTTTGAGCGGTGCTTTGTATAAACCTCATAAGGCAAATGATATAAGATGGGAAGCGATTCAAGCTGTCCGAGCTCGCGAGGGGATGTTGGAAATGGGGCATTTTAGAATATTGAAGAGATTGGGAAGTGGAGATATAGGAAATGTATATCTAGCTGAACTTAGTGGCACAAGGACTTCTTTTGCTATGAAACTCATGAACAAAACTGAGCTTGCAACTCGTAAGAAGCTACTAAGGGCTCAGACGGAAAGAGAGATATTGCAGTCTTTAGATCATCCTTTTTTACCTACATTATATACACACTTTGAGACTGAGACACTCTCTTGCTTGGTAATGGAGTTTTGTCCCGGTGGCGACCTTCATGCAATCAGGCAAAGACAACCTGGGAAGTATTTTTCAGAGCATGCTGTCAGGTTTTATGTTGCAGAAGTTCTGCTTGCTTTGGAGTACTTGCACATGCTTGGAATAATCTATAGAGACCTTAAGCCTGAAAATGTGTTGGTGAGAGAAGACGGTCATATAATGCTCTCAGATTTTGATCTCTCTCTAAGGTGCACCGTCAGTCCAACTCTAGTGAAGTCACCAAACCCGATCACTGAAACTAAAAGCTCCGGATACTGCATTCAGCCAGCATGTGCAATGCAGCCAGACTGCATCCAACATGCATGCTTTTCGCCACGGTTTCTATCCGGAAAATCCAAAGAGAAAAAATTCAGACTAAAGAATGACATGCATCACCAAATGACACCTCTCCCTGAGCTAGTCGCAGAGCCAACAAGTGCGCGGTCAATGTCCTTTGTAGGCACACACGAGTACTTGGCGCCTGAAATTATCAAAGGTGAAGGACATGGAAGTGCTGTGGATTGGTGGACGTTCGGGATATTCTTATACGAACTCTTGTTTGGCCGAACACCATTCAAAGGTTCTGGGAATCGAACCACGATGTTTAATGTTGTTGGGCAGCCTTTAAGGTTTCCAGAATCTCCTACTGTCAGCTTTGCTGCAAGGGACTTGATCAGAGGCTTACTTGTGAAAGAGCCCCAACATCGTCTTGCCTATAGACGCGGAGCTACCGAAATCAAACAACATCCATTCTTTCACAATGTGAACTGGGCACTGATCCGCTGCGCTAATCCGCCAGAGGTACCAAGACAGACCATGATGATGAAACCAAACTCAACTGAAAATGAAGTTGGAATGAACCCTTCTGGTTTCTTGGCTGACTGTCTTAGGGGCGATTTTTTGGATGATGTTTTTCCTAAGTTGTCTTAG |
| Protein sequence |
>Msa0970400 MESPMTAVETIAEVQNSVSEVPIRHSLPITSGIPRSSRPPLYRNNQGASSSSRSFLEQRHYHHNYGTKKIHHLNSYVVNQKHSYHERNNERLPAKLCSKQLFDDDSENFDSSSEVLESDNSILVPSKRAVVNQPKNYYSQSETSFCPSPQNSYYSATVYSEAKQSFTSTEVSECVSVDGKSCESGEVPNFSDFNESRKTSICRASTGSDVSDESNTSSLSGALYKPHKANDIRWEAIQAVRAREGMLEMGHFRILKRLGSGDIGNVYLAELSGTRTSFAMKLMNKTELATRKKLLRAQTEREILQSLDHPFLPTLYTHFETETLSCLVMEFCPGGDLHAIRQRQPGKYFSEHAVRFYVAEVLLALEYLHMLGIIYRDLKPENVLVREDGHIMLSDFDLSLRCTVSPTLVKSPNPITETKSSGYCIQPACAMQPDCIQHACFSPRFLSGKSKEKKFRLKNDMHHQMTPLPELVAEPTSARSMSFVGTHEYLAPEIIKGEGHGSAVDWWTFGIFLYELLFGRTPFKGSGNRTTMFNVVGQPLRFPESPTVSFAARDLIRGLLVKEPQHRLAYRRGATEIKQHPFFHNVNWALIRCANPPEVPRQTMMMKPNSTENEVGMNPSGFLADCLRGDFLDDVFPKLS* |
