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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0079500 | AES61229.2 | 72.449 | 98 | 25 | 1 | 1 | 96 | 418 | 515 | 1.74e-37 | 144 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0079500 | sp|Q8W595|SUVR4_ARATH | 70.588 | 68 | 19 | 1 | 10 | 77 | 304 | 370 | 7.26e-27 | 106 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0079500 | G7I6T4 | 72.449 | 98 | 25 | 1 | 1 | 96 | 418 | 515 | 8.33e-38 | 144 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0079500 | TR | SET |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0079500 | MtrunA17_Chr1g0190311 | 72.449 | 98 | 25 | 1 | 1 | 96 | 476 | 573 | 2.45e-41 | 144 |
| Msa0079500 | MtrunA17_Chr1g0183321 | 57.534 | 73 | 31 | 0 | 1 | 73 | 579 | 651 | 1.41e-23 | 94.4 |
| Msa0079500 | MtrunA17_Chr7g0262001 | 48.485 | 99 | 46 | 3 | 1 | 96 | 535 | 631 | 2.23e-22 | 90.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0079500 | AT3G04380.5 | 70.588 | 68 | 19 | 1 | 10 | 77 | 261 | 327 | 5.39e-28 | 106 |
| Msa0079500 | AT3G04380.6 | 70.588 | 68 | 19 | 1 | 10 | 77 | 277 | 343 | 6.09e-28 | 106 |
| Msa0079500 | AT3G04380.2 | 70.588 | 68 | 19 | 1 | 10 | 77 | 277 | 343 | 6.22e-28 | 106 |
| Msa0079500 | AT3G04380.3 | 70.588 | 68 | 19 | 1 | 10 | 77 | 288 | 354 | 6.70e-28 | 106 |
| Msa0079500 | AT3G04380.4 | 70.588 | 68 | 19 | 1 | 10 | 77 | 304 | 370 | 7.26e-28 | 106 |
| Msa0079500 | AT3G04380.1 | 70.588 | 68 | 19 | 1 | 10 | 77 | 304 | 370 | 7.38e-28 | 106 |
| Msa0079500 | AT1G04050.3 | 58.462 | 65 | 23 | 1 | 10 | 74 | 464 | 524 | 1.10e-17 | 77.8 |
| Msa0079500 | AT1G04050.2 | 58.462 | 65 | 23 | 1 | 10 | 74 | 568 | 628 | 1.12e-17 | 77.8 |
| Msa0079500 | AT1G04050.1 | 58.462 | 65 | 23 | 1 | 10 | 74 | 568 | 628 | 1.12e-17 | 77.8 |
| Msa0079500 | AT5G43990.7 | 60.000 | 65 | 21 | 1 | 10 | 74 | 463 | 522 | 1.41e-17 | 77.4 |
| Msa0079500 | AT5G43990.8 | 60.000 | 65 | 21 | 1 | 10 | 74 | 483 | 542 | 1.41e-17 | 77.4 |
| Msa0079500 | AT5G43990.12 | 60.000 | 65 | 21 | 1 | 10 | 74 | 483 | 542 | 1.41e-17 | 77.4 |
| Msa0079500 | AT5G43990.6 | 60.000 | 65 | 21 | 1 | 10 | 74 | 483 | 542 | 1.41e-17 | 77.4 |
| Msa0079500 | AT5G43990.13 | 60.000 | 65 | 21 | 1 | 10 | 74 | 483 | 542 | 1.41e-17 | 77.4 |
| Msa0079500 | AT5G43990.16 | 60.000 | 65 | 21 | 1 | 10 | 74 | 532 | 591 | 1.42e-17 | 77.4 |
| Msa0079500 | AT5G43990.5 | 60.000 | 65 | 21 | 1 | 10 | 74 | 532 | 591 | 1.42e-17 | 77.4 |
| Msa0079500 | AT5G43990.17 | 60.000 | 65 | 21 | 1 | 10 | 74 | 532 | 591 | 1.42e-17 | 77.4 |
| Msa0079500 | AT5G43990.14 | 60.000 | 65 | 21 | 1 | 10 | 74 | 532 | 591 | 1.42e-17 | 77.4 |
| Msa0079500 | AT5G43990.3 | 60.000 | 65 | 21 | 1 | 10 | 74 | 552 | 611 | 1.43e-17 | 77.4 |
| Msa0079500 | AT5G43990.11 | 60.000 | 65 | 21 | 1 | 10 | 74 | 552 | 611 | 1.43e-17 | 77.4 |
| Msa0079500 | AT5G43990.1 | 60.000 | 65 | 21 | 1 | 10 | 74 | 552 | 611 | 1.43e-17 | 77.4 |
| Msa0079500 | AT5G43990.4 | 60.000 | 65 | 21 | 1 | 10 | 74 | 552 | 611 | 1.43e-17 | 77.4 |
| Msa0079500 | AT5G43990.15 | 60.000 | 65 | 21 | 1 | 10 | 74 | 555 | 614 | 1.43e-17 | 77.4 |
| Msa0079500 | AT5G43990.10 | 60.000 | 65 | 21 | 1 | 10 | 74 | 555 | 614 | 1.43e-17 | 77.4 |
| Msa0079500 | AT5G43990.9 | 60.000 | 65 | 21 | 1 | 10 | 74 | 575 | 634 | 1.43e-17 | 77.4 |
| Msa0079500 | AT5G43990.2 | 60.000 | 65 | 21 | 1 | 10 | 74 | 575 | 634 | 1.43e-17 | 77.4 |
Find 34 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTAATGATAATTAATAAAT+TGG | 0.118899 | 1_2:+57395263 | Msa0079500:CDS |
| TTAATGATAATTAATAAATT+GGG | 0.309452 | 1_2:+57395264 | Msa0079500:CDS |
| ATTAATAAAGGCTGGAAGAT+TGG | 0.356511 | 1_2:+57395342 | Msa0079500:CDS |
| GAAGCATACATCAATCTATA+TGG | 0.361477 | 1_2:+57395309 | Msa0079500:CDS |
| CAGTCTGCATCAAGTGTTAC+AGG | 0.375742 | 1_2:-57395225 | None:intergenic |
| CCTGTCATATAATTCTGAAT+TGG | 0.382980 | 1_2:-57395166 | None:intergenic |
| GGATCAATGATAATTAATAA+AGG | 0.389987 | 1_2:+57395330 | Msa0079500:CDS |
| GACTCAAGAAGGAAAGGGCT+GGG | 0.401844 | 1_2:+57395077 | Msa0079500:CDS |
| ATGGCAATTCAATCAAGGTT+TGG | 0.413866 | 1_2:+57395367 | Msa0079500:CDS |
| CTGTAACACTTGATGCAGAC+TGG | 0.438878 | 1_2:+57395226 | Msa0079500:CDS |
| TGGAAATGGCAATTCAATCA+AGG | 0.453383 | 1_2:+57395362 | Msa0079500:CDS |
| AAAGGCTGGAAGATTGGAAA+TGG | 0.469184 | 1_2:+57395348 | Msa0079500:CDS |
| TAATAAATTGGGGCTAAGCC+AGG | 0.481071 | 1_2:+57395275 | Msa0079500:CDS |
| ATATGTATGTCTATCATTGC+CGG | 0.482653 | 1_2:-57395202 | None:intergenic |
| CAATGATAATTAATAAAGGC+TGG | 0.488167 | 1_2:+57395334 | Msa0079500:CDS |
| ATGCTTCTCCATGTGAAGCC+TGG | 0.502146 | 1_2:-57395293 | None:intergenic |
| CTGAAGATTAAAAGATAAGA+AGG | 0.504553 | 1_2:-57395046 | None:intergenic |
| TTCACAGACAAAGGATCCCT+TGG | 0.512175 | 1_2:-57395124 | None:intergenic |
| CCAATTCAGAATTATATGAC+AGG | 0.514306 | 1_2:+57395166 | Msa0079500:CDS |
| GACAGGATTGTGTATAGTAC+CGG | 0.515595 | 1_2:+57395183 | Msa0079500:CDS |
| TGACTCAAGAAGGAAAGGGC+TGG | 0.517457 | 1_2:+57395076 | Msa0079500:CDS |
| TGTAACACTTGATGCAGACT+GGG | 0.519571 | 1_2:+57395227 | Msa0079500:CDS |
| TAATGATAATTAATAAATTG+GGG | 0.521977 | 1_2:+57395265 | Msa0079500:CDS |
| TGCAGACTGGGGTTCGAAAG+TGG | 0.534679 | 1_2:+57395239 | Msa0079500:CDS |
| CCTTTGTCTGTGAATATGCA+TGG | 0.559027 | 1_2:+57395133 | Msa0079500:CDS |
| GCAGACTGGGGTTCGAAAGT+GGG | 0.573110 | 1_2:+57395240 | Msa0079500:CDS |
| CAATTCAATCAAGGTTTGGA+AGG | 0.575041 | 1_2:+57395371 | Msa0079500:CDS |
| GGGCTAAGCCAGGCTTCACA+TGG | 0.585140 | 1_2:+57395285 | Msa0079500:CDS |
| AACACTAGAAGATTTGTCCA+AGG | 0.586159 | 1_2:+57395107 | Msa0079500:CDS |
| CCATGCATATTCACAGACAA+AGG | 0.601347 | 1_2:-57395133 | None:intergenic |
| ACTCAAGAAGGAAAGGGCTG+GGG | 0.602023 | 1_2:+57395078 | Msa0079500:CDS |
| ACACTAGAAGATTTGTCCAA+GGG | 0.602857 | 1_2:+57395108 | Msa0079500:CDS |
| CTTTGTCTGTGAATATGCAT+GGG | 0.663966 | 1_2:+57395134 | Msa0079500:CDS |
| GTAACACTTGATGCAGACTG+GGG | 0.705204 | 1_2:+57395228 | Msa0079500:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATGATAATTAATAAATTG+GGG | + | chr1_2:57395265-57395284 | Msa0079500:CDS | 10.0% |
| !! | GGATCAATGATAATTAATAA+AGG | + | chr1_2:57395330-57395349 | Msa0079500:CDS | 20.0% |
| ! | CTGAAGATTAAAAGATAAGA+AGG | - | chr1_2:57395049-57395068 | None:intergenic | 25.0% |
| !! | CTTCTTATCTTTTAATCTTC+AGG | + | chr1_2:57395047-57395066 | Msa0079500:CDS | 25.0% |
| ! | CAATGATAATTAATAAAGGC+TGG | + | chr1_2:57395334-57395353 | Msa0079500:CDS | 25.0% |
| !! | TTTTTGACTCAAGAAGGAAA+GGG | + | chr1_2:57395072-57395091 | Msa0079500:CDS | 30.0% |
| CCTGTCATATAATTCTGAAT+TGG | - | chr1_2:57395169-57395188 | None:intergenic | 30.0% | |
| CCAATTCAGAATTATATGAC+AGG | + | chr1_2:57395166-57395185 | Msa0079500:CDS | 30.0% | |
| ATATGTATGTCTATCATTGC+CGG | - | chr1_2:57395205-57395224 | None:intergenic | 30.0% | |
| GAAGCATACATCAATCTATA+TGG | + | chr1_2:57395309-57395328 | Msa0079500:CDS | 30.0% | |
| ATTAATAAAGGCTGGAAGAT+TGG | + | chr1_2:57395342-57395361 | Msa0079500:CDS | 30.0% | |
| !! | GTTTTTGACTCAAGAAGGAA+AGG | + | chr1_2:57395071-57395090 | Msa0079500:CDS | 35.0% |
| AACACTAGAAGATTTGTCCA+AGG | + | chr1_2:57395107-57395126 | Msa0079500:CDS | 35.0% | |
| ACACTAGAAGATTTGTCCAA+GGG | + | chr1_2:57395108-57395127 | Msa0079500:CDS | 35.0% | |
| CTTTGTCTGTGAATATGCAT+GGG | + | chr1_2:57395134-57395153 | Msa0079500:CDS | 35.0% | |
| TGGAAATGGCAATTCAATCA+AGG | + | chr1_2:57395362-57395381 | Msa0079500:CDS | 35.0% | |
| ATGGCAATTCAATCAAGGTT+TGG | + | chr1_2:57395367-57395386 | Msa0079500:CDS | 35.0% | |
| CAATTCAATCAAGGTTTGGA+AGG | + | chr1_2:57395371-57395390 | Msa0079500:CDS | 35.0% | |
| !! | CAGGTGTTTTTGACTCAAGA+AGG | + | chr1_2:57395066-57395085 | Msa0079500:CDS | 40.0% |
| CCATGCATATTCACAGACAA+AGG | - | chr1_2:57395136-57395155 | None:intergenic | 40.0% | |
| CCTTTGTCTGTGAATATGCA+TGG | + | chr1_2:57395133-57395152 | Msa0079500:CDS | 40.0% | |
| GACAGGATTGTGTATAGTAC+CGG | + | chr1_2:57395183-57395202 | Msa0079500:CDS | 40.0% | |
| TGTAACACTTGATGCAGACT+GGG | + | chr1_2:57395227-57395246 | Msa0079500:CDS | 40.0% | |
| TAATAAATTGGGGCTAAGCC+AGG | + | chr1_2:57395275-57395294 | Msa0079500:CDS | 40.0% | |
| AAAGGCTGGAAGATTGGAAA+TGG | + | chr1_2:57395348-57395367 | Msa0079500:CDS | 40.0% | |
| TTCACAGACAAAGGATCCCT+TGG | - | chr1_2:57395127-57395146 | None:intergenic | 45.0% | |
| CAGTCTGCATCAAGTGTTAC+AGG | - | chr1_2:57395228-57395247 | None:intergenic | 45.0% | |
| CTGTAACACTTGATGCAGAC+TGG | + | chr1_2:57395226-57395245 | Msa0079500:CDS | 45.0% | |
| GTAACACTTGATGCAGACTG+GGG | + | chr1_2:57395228-57395247 | Msa0079500:CDS | 45.0% | |
| !! | ATTAATGATAATTAATAAAT+TGG | + | chr1_2:57395263-57395282 | Msa0079500:CDS | 5.0% |
| !! | TTAATGATAATTAATAAATT+GGG | + | chr1_2:57395264-57395283 | Msa0079500:CDS | 5.0% |
| TGACTCAAGAAGGAAAGGGC+TGG | + | chr1_2:57395076-57395095 | Msa0079500:CDS | 50.0% | |
| GACTCAAGAAGGAAAGGGCT+GGG | + | chr1_2:57395077-57395096 | Msa0079500:CDS | 50.0% | |
| ACTCAAGAAGGAAAGGGCTG+GGG | + | chr1_2:57395078-57395097 | Msa0079500:CDS | 50.0% | |
| ATGCTTCTCCATGTGAAGCC+TGG | - | chr1_2:57395296-57395315 | None:intergenic | 50.0% | |
| TGCAGACTGGGGTTCGAAAG+TGG | + | chr1_2:57395239-57395258 | Msa0079500:CDS | 55.0% | |
| GCAGACTGGGGTTCGAAAGT+GGG | + | chr1_2:57395240-57395259 | Msa0079500:CDS | 55.0% | |
| GGGCTAAGCCAGGCTTCACA+TGG | + | chr1_2:57395285-57395304 | Msa0079500:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 57395036 | 57395401 | 57395036 | ID=Msa0079500;Name=Msa0079500 |
| chr1_2 | mRNA | 57395036 | 57395401 | 57395036 | ID=Msa0079500-mRNA-1;Parent=Msa0079500;Name=Msa0079500-mRNA-1;_AED=0.51;_eAED=0.51;_QI=0|-1|0|1|-1|1|1|0|121 |
| chr1_2 | exon | 57395036 | 57395401 | 57395036 | ID=Msa0079500-mRNA-1:exon:18168;Parent=Msa0079500-mRNA-1 |
| chr1_2 | CDS | 57395036 | 57395401 | 57395036 | ID=Msa0079500-mRNA-1:cds;Parent=Msa0079500-mRNA-1 |
| Gene Sequence |
| Protein sequence |
