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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0619740 | RHN43137.1 | 95.745 | 94 | 4 | 0 | 1 | 94 | 1 | 94 | 1.36e-59 | 188 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0619740 | sp|Q8W103|CHR24_ARATH | 64.615 | 65 | 19 | 1 | 34 | 94 | 348 | 412 | 4.42e-20 | 87.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0619740 | A0A396GWZ1 | 95.745 | 94 | 4 | 0 | 1 | 94 | 1 | 94 | 6.51e-60 | 188 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0619740 | TR | SNF2 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0619740 | MtrunA17_Chr8g0384541 | 95.745 | 94 | 4 | 0 | 1 | 94 | 1 | 94 | 1.25e-63 | 188 |
| Msa0619740 | MtrunA17_Chr8g0384531 | 70.455 | 88 | 18 | 2 | 15 | 94 | 332 | 419 | 1.78e-33 | 122 |
| Msa0619740 | MtrunA17_Chr1g0183681 | 53.333 | 45 | 21 | 0 | 50 | 94 | 382 | 426 | 4.52e-12 | 61.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0619740 | AT5G63950.1 | 64.615 | 65 | 19 | 1 | 34 | 94 | 348 | 412 | 4.49e-21 | 87.0 |
| Msa0619740 | AT5G63950.2 | 64.615 | 65 | 19 | 1 | 34 | 94 | 348 | 412 | 4.81e-21 | 87.0 |
| Msa0619740 | AT2G18760.4 | 52.727 | 55 | 20 | 1 | 46 | 94 | 366 | 420 | 5.33e-13 | 64.3 |
| Msa0619740 | AT2G18760.1 | 52.727 | 55 | 20 | 1 | 46 | 94 | 366 | 420 | 5.33e-13 | 64.3 |
| Msa0619740 | AT2G18760.2 | 52.727 | 55 | 20 | 1 | 46 | 94 | 366 | 420 | 5.33e-13 | 64.3 |
| Msa0619740 | AT2G18760.7 | 52.727 | 55 | 20 | 1 | 46 | 94 | 366 | 420 | 5.33e-13 | 64.3 |
| Msa0619740 | AT2G18760.5 | 52.727 | 55 | 20 | 1 | 46 | 94 | 366 | 420 | 5.33e-13 | 64.3 |
| Msa0619740 | AT2G18760.6 | 52.727 | 55 | 20 | 1 | 46 | 94 | 366 | 420 | 5.33e-13 | 64.3 |
| Msa0619740 | AT2G18760.3 | 52.727 | 55 | 20 | 1 | 46 | 94 | 425 | 479 | 5.61e-13 | 63.9 |
Find 27 sgRNAs with CRISPR-Local
Find 103 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCAATCCTTCCCTCTGATA+TGG | 0.321992 | 4_2:+70946432 | None:intergenic |
| GCTCTGGTCATTACATTGTC+AGG | 0.381421 | 4_2:-70946406 | Msa0619740:CDS |
| CTCGCAGATGACATGGGATT+GGG | 0.428089 | 4_2:-70946369 | Msa0619740:CDS |
| CCTCGCAGATGACATGGGAT+TGG | 0.456122 | 4_2:-70946370 | Msa0619740:CDS |
| TGAGTATGAATCAAATGATT+CGG | 0.462163 | 4_2:-70946547 | Msa0619740:CDS |
| GGGAAGGATTGAAGTGGCTC+TGG | 0.490862 | 4_2:-70946422 | Msa0619740:CDS |
| TTGCTATTCTGCAGATACAT+TGG | 0.495016 | 4_2:-70945219 | Msa0619740:intron |
| CACAAAGTCCACGTATAAGT+TGG | 0.495204 | 4_2:-70946481 | Msa0619740:CDS |
| TGAATCAAATGATTCGGATC+TGG | 0.499129 | 4_2:-70946541 | Msa0619740:CDS |
| TGGAATCCTCGCAGATGACA+TGG | 0.518517 | 4_2:-70946376 | Msa0619740:CDS |
| AAATGATTCGGATCTGGTGT+TGG | 0.534372 | 4_2:-70946535 | Msa0619740:CDS |
| TCATTACATTGTCAGGGTAA+AGG | 0.534572 | 4_2:-70946399 | Msa0619740:CDS |
| AAATGTTGATTCCATATCAG+AGG | 0.584917 | 4_2:-70946443 | Msa0619740:CDS |
| TTGATTCCATATCAGAGGGA+AGG | 0.586105 | 4_2:-70946438 | Msa0619740:CDS |
| AAAGTCCACGTATAAGTTGG+AGG | 0.590302 | 4_2:-70946478 | Msa0619740:CDS |
| CTCTGGTCATTACATTGTCA+GGG | 0.600790 | 4_2:-70946405 | Msa0619740:CDS |
| AGAGGATGAAATGAAGACGA+AGG | 0.606720 | 4_2:-70946622 | None:intergenic |
| TTACATTGTCAGGGTAAAGG+TGG | 0.606790 | 4_2:-70946396 | Msa0619740:CDS |
| AGACGAAGGTGAAGGTGCAA+TGG | 0.606860 | 4_2:-70946608 | Msa0619740:CDS |
| AATGTTGATTCCATATCAGA+GGG | 0.609093 | 4_2:-70946442 | Msa0619740:CDS |
| TGAAATGAAGACGAAGGTGA+AGG | 0.621551 | 4_2:-70946616 | None:intergenic |
| TGAACTTAAATGTATACTTG+AGG | 0.636059 | 4_2:-70945172 | None:intergenic |
| AAGTCCACGTATAAGTTGGA+GGG | 0.637438 | 4_2:-70946477 | Msa0619740:CDS |
| GGAATCCTCGCAGATGACAT+GGG | 0.648291 | 4_2:-70946375 | Msa0619740:CDS |
| ATCAGAGGGAAGGATTGAAG+TGG | 0.660849 | 4_2:-70946428 | Msa0619740:CDS |
| CTCTTGACGAGCAGTATCGA+CGG | 0.668548 | 4_2:+70946583 | None:intergenic |
| CCAATCCCATGTCATCTGCG+AGG | 0.678179 | 4_2:+70946370 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTCAATGACAAATTAAATTT+AGG | - | chr4_2:70945480-70945499 | Msa0619740:intron | 15.0% |
| !! | AATAGTTGTGTATATTATTA+TGG | - | chr4_2:70945560-70945579 | Msa0619740:intron | 15.0% |
| !!! | TATATTATTCTCACTTTTTA+TGG | + | chr4_2:70946115-70946134 | None:intergenic | 15.0% |
| !!! | TGTAGATCTTTTTTTTACAA+GGG | - | chr4_2:70945534-70945553 | Msa0619740:intron | 20.0% |
| !! | AAATGTGTGTGATTATATTT+CGG | + | chr4_2:70946030-70946049 | None:intergenic | 20.0% |
| !! | TCATAATAAATGGTATGTTT+GGG | + | chr4_2:70946175-70946194 | None:intergenic | 20.0% |
| !! | ATCATAATAAATGGTATGTT+TGG | + | chr4_2:70946176-70946195 | None:intergenic | 20.0% |
| !! | AACATACCATTTATTATGAT+AGG | - | chr4_2:70946176-70946195 | Msa0619740:intron | 20.0% |
| !! | CTATTACCTATCATAATAAA+TGG | + | chr4_2:70946185-70946204 | None:intergenic | 20.0% |
| !! | CATTTATTATGATAGGTAAT+AGG | - | chr4_2:70946183-70946202 | Msa0619740:intron | 20.0% |
| !! | TATGGACTTAGTAAATTAAA+GGG | + | chr4_2:70946227-70946246 | None:intergenic | 20.0% |
| !! | TTATGGACTTAGTAAATTAA+AGG | + | chr4_2:70946228-70946247 | None:intergenic | 20.0% |
| !! | AGTAAATAGGAAAAAATTGA+GGG | + | chr4_2:70946258-70946277 | None:intergenic | 20.0% |
| !! | TAGTAAATAGGAAAAAATTG+AGG | + | chr4_2:70946259-70946278 | None:intergenic | 20.0% |
| !! | TAATTATGGACTTAGTAAAT+AGG | + | chr4_2:70946231-70946250 | None:intergenic | 20.0% |
| !! | TTGATTCACATTTAATTAGA+AGG | - | chr4_2:70946342-70946361 | Msa0619740:intron | 20.0% |
| !! | TGATTCACATTTAATTAGAA+GGG | - | chr4_2:70946343-70946362 | Msa0619740:intron | 20.0% |
| !! | ATTATGTGATGAATAAAATC+AGG | + | chr4_2:70946460-70946479 | None:intergenic | 20.0% |
| ! | TGAGTATGAATCAAATGATT+CGG | - | chr4_2:70945240-70945259 | Msa0619740:intron | 25.0% |
| ! | AAGATCTACACAATTATTCA+TGG | + | chr4_2:70945524-70945543 | None:intergenic | 25.0% |
| !!! | GTGTAGATCTTTTTTTTACA+AGG | - | chr4_2:70945533-70945552 | Msa0619740:intron | 25.0% |
| ! | TATTATGGTAAACTGAAGTT+TGG | - | chr4_2:70945575-70945594 | Msa0619740:intron | 25.0% |
| ! | TCATTCAATTATTCAATGAC+CGG | + | chr4_2:70945954-70945973 | None:intergenic | 25.0% |
| ! | CTAACTTATACCAAAAATAC+AGG | - | chr4_2:70946061-70946080 | Msa0619740:intron | 25.0% |
| !! | ATTTAAGTCTCCTGTATTTT+TGG | + | chr4_2:70946074-70946093 | None:intergenic | 25.0% |
| ! | GTAAATAGGAAAAAATTGAG+GGG | + | chr4_2:70946257-70946276 | None:intergenic | 25.0% |
| !!! | ACATTTAAGTTCATTTTCTC+TGG | + | chr4_2:70946608-70946627 | None:intergenic | 25.0% |
| !! | AAATGTTGATTCCATATCAG+AGG | - | chr4_2:70945344-70945363 | Msa0619740:intron | 30.0% |
| !! | AATGTTGATTCCATATCAGA+GGG | - | chr4_2:70945345-70945364 | Msa0619740:intron | 30.0% |
| CGGTTATCATAGATAACTAA+TGG | + | chr4_2:70946010-70946029 | None:intergenic | 30.0% | |
| AAATTGAGGGGTAGTAATTA+TGG | + | chr4_2:70946245-70946264 | None:intergenic | 30.0% | |
| TATCTGATATCACTAAACAG+TGG | - | chr4_2:70946429-70946448 | Msa0619740:CDS | 30.0% | |
| ATCTGATATCACTAAACAGT+GGG | - | chr4_2:70946430-70946449 | Msa0619740:CDS | 30.0% | |
| TTGGAAATTGCTTAAGGATT+TGG | + | chr4_2:70946547-70946566 | None:intergenic | 30.0% | |
| AGCAAATTGGAAATTGCTTA+AGG | + | chr4_2:70946553-70946572 | None:intergenic | 30.0% | |
| ! | TGAATCAAATGATTCGGATC+TGG | - | chr4_2:70945246-70945265 | Msa0619740:intron | 35.0% |
| TCATTACATTGTCAGGGTAA+AGG | - | chr4_2:70945388-70945407 | Msa0619740:intron | 35.0% | |
| AAAAACAATGCAGGTACGTA+AGG | - | chr4_2:70945441-70945460 | Msa0619740:intron | 35.0% | |
| !!! | TGTTGTTTTGCTCCTTTTAG+GGG | + | chr4_2:70945899-70945918 | None:intergenic | 35.0% |
| !!! | CTGTTGTTTTGCTCCTTTTA+GGG | + | chr4_2:70945900-70945919 | None:intergenic | 35.0% |
| ATTATTCAATGACCGGCATT+GGG | + | chr4_2:70945947-70945966 | None:intergenic | 35.0% | |
| AATTATTCAATGACCGGCAT+TGG | + | chr4_2:70945948-70945967 | None:intergenic | 35.0% | |
| !! | AATTAGAAGGGTGTTGATTG+TGG | - | chr4_2:70946355-70946374 | Msa0619740:CDS | 35.0% |
| ! | AATGCGGCAATAGTGTTTTT+GGG | + | chr4_2:70946382-70946401 | None:intergenic | 35.0% |
| GATAACTCTTTGATCCAATG+CGG | + | chr4_2:70946398-70946417 | None:intergenic | 35.0% | |
| ATCAAAGAGTTATCCCTTGT+TGG | - | chr4_2:70946404-70946423 | Msa0619740:CDS | 35.0% | |
| GATATCAGATAGACCAACAA+GGG | + | chr4_2:70946420-70946439 | None:intergenic | 35.0% | |
| TGATATCAGATAGACCAACA+AGG | + | chr4_2:70946421-70946440 | None:intergenic | 35.0% | |
| TCTGATATCACTAAACAGTG+GGG | - | chr4_2:70946431-70946450 | Msa0619740:CDS | 35.0% | |
| GTATCTGCAGAATAGCAAAT+TGG | + | chr4_2:70946566-70946585 | None:intergenic | 35.0% | |
| ! | TTGCTATTCTGCAGATACAT+TGG | - | chr4_2:70946568-70946587 | Msa0619740:CDS | 35.0% |
| ! | AAATGATTCGGATCTGGTGT+TGG | - | chr4_2:70945252-70945271 | Msa0619740:intron | 40.0% |
| CACAAAGTCCACGTATAAGT+TGG | - | chr4_2:70945306-70945325 | Msa0619740:intron | 40.0% | |
| ! | AAAGTCCACGTATAAGTTGG+AGG | - | chr4_2:70945309-70945328 | Msa0619740:intron | 40.0% |
| ! | AAGTCCACGTATAAGTTGGA+GGG | - | chr4_2:70945310-70945329 | Msa0619740:intron | 40.0% |
| ! | TTTTCCCTCCAACTTATACG+TGG | + | chr4_2:70945317-70945336 | None:intergenic | 40.0% |
| TTGATTCCATATCAGAGGGA+AGG | - | chr4_2:70945349-70945368 | Msa0619740:intron | 40.0% | |
| TTCAATCCTTCCCTCTGATA+TGG | + | chr4_2:70945358-70945377 | None:intergenic | 40.0% | |
| CTCTGGTCATTACATTGTCA+GGG | - | chr4_2:70945382-70945401 | Msa0619740:intron | 40.0% | |
| TTACATTGTCAGGGTAAAGG+TGG | - | chr4_2:70945391-70945410 | Msa0619740:intron | 40.0% | |
| ! | TCGTGGTTCTATCTTTGTGT+AGG | + | chr4_2:70945842-70945861 | None:intergenic | 40.0% |
| !!! | CCTGTTGTTTTGCTCCTTTT+AGG | + | chr4_2:70945901-70945920 | None:intergenic | 40.0% |
| CCTAAAAGGAGCAAAACAAC+AGG | - | chr4_2:70945898-70945917 | Msa0619740:intron | 40.0% | |
| TTATTCAATGACCGGCATTG+GGG | + | chr4_2:70945946-70945965 | None:intergenic | 40.0% | |
| TCCATAATTACCACCAATGC+TGG | - | chr4_2:70946281-70946300 | Msa0619740:intron | 40.0% | |
| !! | ACCAGCATTGGTGGTAATTA+TGG | + | chr4_2:70946285-70946304 | None:intergenic | 40.0% |
| ! | CAAGAAAAAACCAGCATTGG+TGG | + | chr4_2:70946294-70946313 | None:intergenic | 40.0% |
| CTGCAAGAAAAAACCAGCAT+TGG | + | chr4_2:70946297-70946316 | None:intergenic | 40.0% | |
| !! | CAGATTTGTTGCTTTCTAGC+TGG | - | chr4_2:70946314-70946333 | Msa0619740:intron | 40.0% |
| ! | CAATGCGGCAATAGTGTTTT+TGG | + | chr4_2:70946383-70946402 | None:intergenic | 40.0% |
| CAAAAACACTATTGCCGCAT+TGG | - | chr4_2:70946381-70946400 | Msa0619740:CDS | 40.0% | |
| !! | TTTTCTCTGGCTTCAGTACA+CGG | + | chr4_2:70946595-70946614 | None:intergenic | 40.0% |
| ATCAGAGGGAAGGATTGAAG+TGG | - | chr4_2:70945359-70945378 | Msa0619740:intron | 45.0% | |
| GCTCTGGTCATTACATTGTC+AGG | - | chr4_2:70945381-70945400 | Msa0619740:intron | 45.0% | |
| GGGATTGGGAAAAACAATGC+AGG | - | chr4_2:70945432-70945451 | Msa0619740:intron | 45.0% | |
| ! | TATTCAATGACCGGCATTGG+GGG | + | chr4_2:70945945-70945964 | None:intergenic | 45.0% |
| !!! | AATAATTGATTTTTTTTTAA+TGG | - | chr4_2:70945684-70945703 | Msa0619740:intron | 5.0% |
| ! | AGACGAAGGTGAAGGTGCAA+TGG | - | chr4_2:70945179-70945198 | Msa0619740:CDS | 50.0% |
| ! | CTCTTGACGAGCAGTATCGA+CGG | + | chr4_2:70945207-70945226 | None:intergenic | 50.0% |
| TGGAATCCTCGCAGATGACA+TGG | - | chr4_2:70945411-70945430 | Msa0619740:intron | 50.0% | |
| GGAATCCTCGCAGATGACAT+GGG | - | chr4_2:70945412-70945431 | Msa0619740:intron | 50.0% | |
| CTCGCAGATGACATGGGATT+GGG | - | chr4_2:70945418-70945437 | Msa0619740:intron | 50.0% | |
| !! | GTGTCGCTTGGCGACTTTAT+TGG | + | chr4_2:70945818-70945837 | None:intergenic | 50.0% |
| ! | CTTTGTGTAGGTGTGTCGCT+TGG | + | chr4_2:70945830-70945849 | None:intergenic | 50.0% |
| CAAAAGAAAGCCCCCAATGC+CGG | - | chr4_2:70945932-70945951 | Msa0619740:intron | 50.0% | |
| GGGAAGGATTGAAGTGGCTC+TGG | - | chr4_2:70945365-70945384 | Msa0619740:intron | 55.0% | |
| CCAATCCCATGTCATCTGCG+AGG | + | chr4_2:70945420-70945439 | None:intergenic | 55.0% | |
| CCTCGCAGATGACATGGGAT+TGG | - | chr4_2:70945417-70945436 | Msa0619740:intron | 55.0% | |
| AGAACCACGAACCCCACAAC+CGG | - | chr4_2:70945852-70945871 | Msa0619740:intron | 55.0% | |
| !! | TGCTCCTTTTAGGGGCCCTT+GGG | + | chr4_2:70945891-70945910 | None:intergenic | 55.0% |
| !! | TTGCTCCTTTTAGGGGCCCT+TGG | + | chr4_2:70945892-70945911 | None:intergenic | 55.0% |
| GAACCACGAACCCCACAACC+GGG | - | chr4_2:70945853-70945872 | Msa0619740:intron | 60.0% | |
| AACCACGAACCCCACAACCG+GGG | - | chr4_2:70945854-70945873 | Msa0619740:intron | 60.0% | |
| CACACCCAAGGGCCCCTAAA+AGG | - | chr4_2:70945884-70945903 | Msa0619740:intron | 60.0% | |
| AACCCCACAACCGGGGCCGA+AGG | - | chr4_2:70945861-70945880 | Msa0619740:intron | 70.0% | |
| TGCCTTCGGCCCCGGTTGTG+GGG | + | chr4_2:70945866-70945885 | None:intergenic | 70.0% | |
| GTGCCTTCGGCCCCGGTTGT+GGG | + | chr4_2:70945867-70945886 | None:intergenic | 70.0% | |
| TGTGCCTTCGGCCCCGGTTG+TGG | + | chr4_2:70945868-70945887 | None:intergenic | 70.0% | |
| CTTGGGTGTGCCTTCGGCCC+CGG | + | chr4_2:70945874-70945893 | None:intergenic | 70.0% | |
| ! | GGGGCCGAAGGCACACCCAA+GGG | - | chr4_2:70945873-70945892 | Msa0619740:intron | 70.0% |
| GGGGCCCTTGGGTGTGCCTT+CGG | + | chr4_2:70945880-70945899 | None:intergenic | 70.0% | |
| GGCCCCGGTTGTGGGGTTCG+TGG | + | chr4_2:70945859-70945878 | None:intergenic | 75.0% | |
| ! | CGGGGCCGAAGGCACACCCA+AGG | - | chr4_2:70945872-70945891 | Msa0619740:intron | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 70945175 | 70946634 | 70945175 | ID=Msa0619740;Name=Msa0619740 |
| chr4_2 | mRNA | 70945175 | 70946634 | 70945175 | ID=Msa0619740-mRNA-1;Parent=Msa0619740;Name=Msa0619740-mRNA-1;_AED=0.55;_eAED=0.55;_QI=0|0|0|0.5|1|0.5|2|0|112 |
| chr4_2 | exon | 70946352 | 70946634 | 70946352 | ID=Msa0619740-mRNA-1:exon:20871;Parent=Msa0619740-mRNA-1 |
| chr4_2 | exon | 70945175 | 70945227 | 70945175 | ID=Msa0619740-mRNA-1:exon:20870;Parent=Msa0619740-mRNA-1 |
| chr4_2 | CDS | 70946352 | 70946634 | 70946352 | ID=Msa0619740-mRNA-1:cds;Parent=Msa0619740-mRNA-1 |
| chr4_2 | CDS | 70945175 | 70945227 | 70945175 | ID=Msa0619740-mRNA-1:cds;Parent=Msa0619740-mRNA-1 |
| Gene Sequence |
| Protein sequence |
