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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0905770 | ABW22423.1 | 100.000 | 204 | 0 | 0 | 1 | 204 | 1 | 204 | 1.27e-147 | 418 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0905770 | sp|P26863|RT01_MARPO | 33.654 | 208 | 81 | 6 | 5 | 203 | 3 | 162 | 2.16e-22 | 94.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0306210 | Msa0905770 | 0.803714 | 3.056026e-49 | -8.615850e-47 |
| Msa0905770 | Msa0942080 | 0.813978 | 1.946398e-51 | -8.615850e-47 |
| Msa0905770 | Msa1325860 | 0.826307 | 2.914795e-54 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0905770 | MtrunA17_Chr6g0453651 | 97.549 | 204 | 5 | 0 | 1 | 204 | 1 | 204 | 1.39e-146 | 405 |
| Msa0905770 | MtrunA17_MTg0490291 | 73.373 | 169 | 25 | 2 | 36 | 204 | 2 | 150 | 7.30e-81 | 237 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 51 sgRNAs with CRISPR-Local
Find 63 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCCACCAGGTTTGAGAATA+AGG | 0.267184 | 6_2:+4007394 | Msa0905770:CDS |
| TTCTTCTCCCACGAAGATTC+AGG | 0.267746 | 6_2:+4007582 | Msa0905770:CDS |
| TGAGAATAAGGTGGGATTCT+TGG | 0.283152 | 6_2:+4007406 | Msa0905770:CDS |
| ACACATCAGAAAGAAGAATT+TGG | 0.283979 | 6_2:+4007448 | Msa0905770:CDS |
| AGCTGCCAGGTTTAATGATA+TGG | 0.336529 | 6_2:+4007523 | Msa0905770:CDS |
| GGATGAAACTGAATAAGATT+TGG | 0.359256 | 6_2:+4007618 | Msa0905770:CDS |
| TTATTCTCAAACCTGGTGGC+TGG | 0.376000 | 6_2:-4007392 | None:intergenic |
| AACCTGGTGGCTGGGTTGAT+AGG | 0.406871 | 6_2:-4007383 | None:intergenic |
| CTTAGGGAAAGAAACGTTCT+TGG | 0.410244 | 6_2:+4007304 | Msa0905770:CDS |
| CTTTCTGATGTGTGTTTCAC+CGG | 0.412209 | 6_2:-4007438 | None:intergenic |
| TTCTTGGTGGATGCAGGACC+TGG | 0.415168 | 6_2:+4007320 | Msa0905770:CDS |
| AGAGTATTGTGGTGTTCTAA+AGG | 0.439372 | 6_2:+4007810 | Msa0905770:CDS |
| CATTCCGTTCTCACAGCAAA+AGG | 0.450534 | 6_2:+4007729 | Msa0905770:CDS |
| TTCTTTGATCAGTGGTTCAC+CGG | 0.453887 | 6_2:-4007495 | None:intergenic |
| TATTCTCAAACCTGGTGGCT+GGG | 0.461535 | 6_2:-4007391 | None:intergenic |
| TTTGGGGTTAATGCTCTCAA+TGG | 0.466840 | 6_2:-4007783 | None:intergenic |
| GATTCAGGCAAGACCGAGCT+TGG | 0.473612 | 6_2:+4007597 | Msa0905770:CDS |
| CGGTCTTGCCTGAATCTTCG+TGG | 0.477095 | 6_2:-4007590 | None:intergenic |
| AATGAACTTGAATTACATCT+AGG | 0.479422 | 6_2:-4007242 | None:intergenic |
| TCAAGTTCATTCTTATGTAG+TGG | 0.480693 | 6_2:+4007254 | Msa0905770:CDS |
| TCAAAGAACGAGCAGCTGCC+AGG | 0.484964 | 6_2:+4007510 | Msa0905770:CDS |
| GAAACGTTCTTGGTGGATGC+AGG | 0.497487 | 6_2:+4007314 | Msa0905770:CDS |
| GAGATTATTCATTGATCTAG+TGG | 0.529676 | 6_2:+4007472 | Msa0905770:CDS |
| GGATTCTTGGATCGAGCAGC+CGG | 0.536676 | 6_2:+4007419 | Msa0905770:CDS |
| GGTTATTCAGTAGCCATCGC+GGG | 0.537446 | 6_2:+4007689 | Msa0905770:CDS |
| TATTCAGTTTCATCCAAGCT+CGG | 0.538379 | 6_2:-4007610 | None:intergenic |
| TTCATTCTTATGTAGTGGAA+AGG | 0.539863 | 6_2:+4007259 | Msa0905770:CDS |
| TGCCTATCAACCCAGCCACC+AGG | 0.553033 | 6_2:+4007381 | Msa0905770:CDS |
| TTATTCATTGATCTAGTGGC+CGG | 0.553492 | 6_2:+4007476 | Msa0905770:CDS |
| GCTGCTCGTTCTTTGATCAG+TGG | 0.558817 | 6_2:-4007503 | None:intergenic |
| TTTATTATTGATAAAGTCAG+AGG | 0.559698 | 6_2:+4007665 | Msa0905770:CDS |
| GCCAGGTTTAATGATATGGC+AGG | 0.562991 | 6_2:+4007527 | Msa0905770:CDS |
| GCGCAAAACTTCAGATTGCA+AGG | 0.575047 | 6_2:-4007282 | None:intergenic |
| GGTCTTGCCTGAATCTTCGT+GGG | 0.575360 | 6_2:-4007589 | None:intergenic |
| ACCAGGTTTGAGAATAAGGT+GGG | 0.575722 | 6_2:+4007398 | Msa0905770:CDS |
| CTCACAGCAAAAGGCAAAGA+CGG | 0.575778 | 6_2:+4007738 | Msa0905770:CDS |
| TCCTGCCATATCATTAAACC+TGG | 0.578910 | 6_2:-4007528 | None:intergenic |
| AGGGAAAGAAACGTTCTTGG+TGG | 0.580645 | 6_2:+4007307 | Msa0905770:CDS |
| GGCAGGATCCACAGATGTAG+TGG | 0.581851 | 6_2:+4007544 | Msa0905770:CDS |
| TCCCACCTTATTCTCAAACC+TGG | 0.582226 | 6_2:-4007399 | None:intergenic |
| CGAACGAATACAAAGGTGAA+AGG | 0.595541 | 6_2:+4007641 | Msa0905770:CDS |
| ATTATTGATAAAGTCAGAGG+AGG | 0.597950 | 6_2:+4007668 | Msa0905770:CDS |
| TCTTGGTGGATGCAGGACCT+GGG | 0.605758 | 6_2:+4007321 | Msa0905770:CDS |
| TTCATCAGCCACTACATCTG+TGG | 0.609411 | 6_2:-4007552 | None:intergenic |
| CACCAGGTTTGAGAATAAGG+TGG | 0.623782 | 6_2:+4007397 | Msa0905770:CDS |
| CTTCGTGGGAGAAGAAGAAG+TGG | 0.639862 | 6_2:-4007575 | None:intergenic |
| CACCTTATTCTCAAACCTGG+TGG | 0.641320 | 6_2:-4007396 | None:intergenic |
| AGGTTATTCAGTAGCCATCG+CGG | 0.647116 | 6_2:+4007688 | Msa0905770:CDS |
| ACAGCAAAAGGCAAAGACGG+AGG | 0.694620 | 6_2:+4007741 | Msa0905770:CDS |
| ATAAGCAATGAAACCCGCGA+TGG | 0.706583 | 6_2:-4007702 | None:intergenic |
| GATTTGGCGAACGAATACAA+AGG | 0.774797 | 6_2:+4007634 | Msa0905770:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTATTATTGATAAAGTCAG+AGG | + | chr6_2:4007665-4007684 | Msa0905770:CDS | 20.0% |
| ! | AATGAACTTGAATTACATCT+AGG | - | chr6_2:4007245-4007264 | None:intergenic | 25.0% |
| !!! | ACCACAATACTCTTATTTTT+GGG | - | chr6_2:4007803-4007822 | None:intergenic | 25.0% |
| TCAAGTTCATTCTTATGTAG+TGG | + | chr6_2:4007254-4007273 | Msa0905770:CDS | 30.0% | |
| ! | TTCATTCTTATGTAGTGGAA+AGG | + | chr6_2:4007259-4007278 | Msa0905770:CDS | 30.0% |
| ! | TCATCTCGTGTACAATTTTT+GGG | - | chr6_2:4007350-4007369 | None:intergenic | 30.0% |
| ACACATCAGAAAGAAGAATT+TGG | + | chr6_2:4007448-4007467 | Msa0905770:CDS | 30.0% | |
| GAGATTATTCATTGATCTAG+TGG | + | chr6_2:4007472-4007491 | Msa0905770:CDS | 30.0% | |
| GGATGAAACTGAATAAGATT+TGG | + | chr6_2:4007618-4007637 | Msa0905770:CDS | 30.0% | |
| ATTATTGATAAAGTCAGAGG+AGG | + | chr6_2:4007668-4007687 | Msa0905770:CDS | 30.0% | |
| !!! | CCACAATACTCTTATTTTTG+GGG | - | chr6_2:4007802-4007821 | None:intergenic | 30.0% |
| !!! | CACCACAATACTCTTATTTT+TGG | - | chr6_2:4007804-4007823 | None:intergenic | 30.0% |
| !! | AATCTGAAGTTTTGCGCTTA+GGG | + | chr6_2:4007288-4007307 | Msa0905770:CDS | 35.0% |
| !! | ATCTCGTGTACAATTTTTGG+GGG | - | chr6_2:4007348-4007367 | None:intergenic | 35.0% |
| ! | CATCTCGTGTACAATTTTTG+GGG | - | chr6_2:4007349-4007368 | None:intergenic | 35.0% |
| ! | CTCATCTCGTGTACAATTTT+TGG | - | chr6_2:4007351-4007370 | None:intergenic | 35.0% |
| TTATTCATTGATCTAGTGGC+CGG | + | chr6_2:4007476-4007495 | Msa0905770:CDS | 35.0% | |
| TATTCAGTTTCATCCAAGCT+CGG | - | chr6_2:4007613-4007632 | None:intergenic | 35.0% | |
| !! | CCCCAAAAATAAGAGTATTG+TGG | + | chr6_2:4007799-4007818 | Msa0905770:CDS | 35.0% |
| !! | CAATCTGAAGTTTTGCGCTT+AGG | + | chr6_2:4007287-4007306 | Msa0905770:CDS | 40.0% |
| CTTAGGGAAAGAAACGTTCT+TGG | + | chr6_2:4007304-4007323 | Msa0905770:CDS | 40.0% | |
| ACCAGGTTTGAGAATAAGGT+GGG | + | chr6_2:4007398-4007417 | Msa0905770:CDS | 40.0% | |
| TGAGAATAAGGTGGGATTCT+TGG | + | chr6_2:4007406-4007425 | Msa0905770:CDS | 40.0% | |
| CTTTCTGATGTGTGTTTCAC+CGG | - | chr6_2:4007441-4007460 | None:intergenic | 40.0% | |
| TTCTTTGATCAGTGGTTCAC+CGG | - | chr6_2:4007498-4007517 | None:intergenic | 40.0% | |
| AGCTGCCAGGTTTAATGATA+TGG | + | chr6_2:4007523-4007542 | Msa0905770:CDS | 40.0% | |
| TCCTGCCATATCATTAAACC+TGG | - | chr6_2:4007531-4007550 | None:intergenic | 40.0% | |
| GATTTGGCGAACGAATACAA+AGG | + | chr6_2:4007634-4007653 | Msa0905770:CDS | 40.0% | |
| CGAACGAATACAAAGGTGAA+AGG | + | chr6_2:4007641-4007660 | Msa0905770:CDS | 40.0% | |
| !! | TTTGCCTTTTGCTGTGAGAA+CGG | - | chr6_2:4007736-4007755 | None:intergenic | 40.0% |
| ! | TTTGGGGTTAATGCTCTCAA+TGG | - | chr6_2:4007786-4007805 | None:intergenic | 40.0% |
| GCGCAAAACTTCAGATTGCA+AGG | - | chr6_2:4007285-4007304 | None:intergenic | 45.0% | |
| AGGGAAAGAAACGTTCTTGG+TGG | + | chr6_2:4007307-4007326 | Msa0905770:CDS | 45.0% | |
| TATTCTCAAACCTGGTGGCT+GGG | - | chr6_2:4007394-4007413 | None:intergenic | 45.0% | |
| TTATTCTCAAACCTGGTGGC+TGG | - | chr6_2:4007395-4007414 | None:intergenic | 45.0% | |
| AGCCACCAGGTTTGAGAATA+AGG | + | chr6_2:4007394-4007413 | Msa0905770:CDS | 45.0% | |
| CACCTTATTCTCAAACCTGG+TGG | - | chr6_2:4007399-4007418 | None:intergenic | 45.0% | |
| CACCAGGTTTGAGAATAAGG+TGG | + | chr6_2:4007397-4007416 | Msa0905770:CDS | 45.0% | |
| TCCCACCTTATTCTCAAACC+TGG | - | chr6_2:4007402-4007421 | None:intergenic | 45.0% | |
| GCCAGGTTTAATGATATGGC+AGG | + | chr6_2:4007527-4007546 | Msa0905770:CDS | 45.0% | |
| TTCATCAGCCACTACATCTG+TGG | - | chr6_2:4007555-4007574 | None:intergenic | 45.0% | |
| TTCTTCTCCCACGAAGATTC+AGG | + | chr6_2:4007582-4007601 | Msa0905770:CDS | 45.0% | |
| AGGTTATTCAGTAGCCATCG+CGG | + | chr6_2:4007688-4007707 | Msa0905770:CDS | 45.0% | |
| ATAAGCAATGAAACCCGCGA+TGG | - | chr6_2:4007705-4007724 | None:intergenic | 45.0% | |
| !! | CTTTTGCTGTGAGAACGGAA+TGG | - | chr6_2:4007731-4007750 | None:intergenic | 45.0% |
| CATTCCGTTCTCACAGCAAA+AGG | + | chr6_2:4007729-4007748 | Msa0905770:CDS | 45.0% | |
| CTCACAGCAAAAGGCAAAGA+CGG | + | chr6_2:4007738-4007757 | Msa0905770:CDS | 45.0% | |
| ! | GAAACGTTCTTGGTGGATGC+AGG | + | chr6_2:4007314-4007333 | Msa0905770:CDS | 50.0% |
| !! | GTACAATTTTTGGGGGTCCC+AGG | - | chr6_2:4007341-4007360 | None:intergenic | 50.0% |
| GCTGCTCGTTCTTTGATCAG+TGG | - | chr6_2:4007506-4007525 | None:intergenic | 50.0% | |
| CTTCGTGGGAGAAGAAGAAG+TGG | - | chr6_2:4007578-4007597 | None:intergenic | 50.0% | |
| GGTCTTGCCTGAATCTTCGT+GGG | - | chr6_2:4007592-4007611 | None:intergenic | 50.0% | |
| GGTTATTCAGTAGCCATCGC+GGG | + | chr6_2:4007689-4007708 | Msa0905770:CDS | 50.0% | |
| ACAGCAAAAGGCAAAGACGG+AGG | + | chr6_2:4007741-4007760 | Msa0905770:CDS | 50.0% | |
| ! | TTCTTGGTGGATGCAGGACC+TGG | + | chr6_2:4007320-4007339 | Msa0905770:CDS | 55.0% |
| ! | TCTTGGTGGATGCAGGACCT+GGG | + | chr6_2:4007321-4007340 | Msa0905770:CDS | 55.0% |
| !! | AACCTGGTGGCTGGGTTGAT+AGG | - | chr6_2:4007386-4007405 | None:intergenic | 55.0% |
| GGATTCTTGGATCGAGCAGC+CGG | + | chr6_2:4007419-4007438 | Msa0905770:CDS | 55.0% | |
| TCAAAGAACGAGCAGCTGCC+AGG | + | chr6_2:4007510-4007529 | Msa0905770:CDS | 55.0% | |
| GGCAGGATCCACAGATGTAG+TGG | + | chr6_2:4007544-4007563 | Msa0905770:CDS | 55.0% | |
| CGGTCTTGCCTGAATCTTCG+TGG | - | chr6_2:4007593-4007612 | None:intergenic | 55.0% | |
| GATTCAGGCAAGACCGAGCT+TGG | + | chr6_2:4007597-4007616 | Msa0905770:CDS | 55.0% | |
| TGCCTATCAACCCAGCCACC+AGG | + | chr6_2:4007381-4007400 | Msa0905770:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_2 | gene | 4007215 | 4007829 | 4007215 | ID=Msa0905770;Name=Msa0905770 |
| chr6_2 | mRNA | 4007215 | 4007829 | 4007215 | ID=Msa0905770-mRNA-1;Parent=Msa0905770;Name=Msa0905770-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|204 |
| chr6_2 | exon | 4007215 | 4007829 | 4007215 | ID=Msa0905770-mRNA-1:exon:1223;Parent=Msa0905770-mRNA-1 |
| chr6_2 | CDS | 4007215 | 4007829 | 4007215 | ID=Msa0905770-mRNA-1:cds;Parent=Msa0905770-mRNA-1 |
| Gene Sequence |
| Protein sequence |
