Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene76890.t1 | XP_013459401.1 | 96.3 | 134 | 5 | 0 | 1 | 134 | 191 | 324 | 8.80E-65 | 256.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene76890.t1 | A0A072UV00 | 96.3 | 134 | 5 | 0 | 1 | 134 | 191 | 324 | 6.3e-65 | 256.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049227 | MS.gene76890 | 0.82908 | 6.29E-55 | -1.69E-46 |
| MS.gene052628 | MS.gene76890 | 0.824982 | 6.01E-54 | -1.69E-46 |
| MS.gene052630 | MS.gene76890 | 0.815703 | 8.07E-52 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene76890.t1 | MTR_3g037110 | 96.269 | 134 | 5 | 0 | 1 | 134 | 191 | 324 | 3.79e-93 | 272 |
| MS.gene76890.t1 | MTR_4g109020 | 67.164 | 134 | 38 | 1 | 1 | 134 | 197 | 324 | 1.11e-55 | 176 |
| MS.gene76890.t1 | MTR_4g082350 | 34.021 | 97 | 61 | 1 | 1 | 97 | 237 | 330 | 8.40e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene76890.t1 | AT5G61340 | 46.324 | 136 | 70 | 2 | 1 | 133 | 190 | 325 | 3.38e-36 | 126 |
| MS.gene76890.t1 | AT5G61340 | 46.324 | 136 | 70 | 2 | 1 | 133 | 223 | 358 | 5.59e-36 | 126 |
Find 28 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGAAAGCATGTATTGTTCTA+AGG | 0.246591 | 3.3:+27087322 | MS.gene76890:CDS |
| AACATCAATGGCTTTGTTCT+TGG | 0.252405 | 3.3:+27087350 | MS.gene76890:CDS |
| TTGAAGCTTTGTTTCAATTC+CGG | 0.255839 | 3.3:+27087403 | MS.gene76890:CDS |
| ATAGAGGATGACAGTTATTA+TGG | 0.284797 | 3.3:+27087615 | MS.gene76890:CDS |
| TGAAGCTTTGTTTCAATTCC+GGG | 0.319255 | 3.3:+27087404 | MS.gene76890:CDS |
| ACTTCCTGTTAATGTAGGTT+TGG | 0.385687 | 3.3:+27087374 | MS.gene76890:CDS |
| TTGGCACTTCCTGTTAATGT+AGG | 0.399443 | 3.3:+27087369 | MS.gene76890:CDS |
| GCAGCCAAACCTACATTAAC+AGG | 0.400186 | 3.3:-27087378 | None:intergenic |
| AACATGGCACTGACGCTATC+TGG | 0.405176 | 3.3:+27087267 | None:intergenic |
| TACAAAAGCTGCAAAGTAAG+AGG | 0.421991 | 3.3:+27087546 | MS.gene76890:CDS |
| CTTGAAAATTCTTGATTCCC+AGG | 0.431044 | 3.3:-27087641 | None:intergenic |
| GGAGGGACATGGAGGTTATA+TGG | 0.435325 | 3.3:+27087293 | MS.gene76890:CDS |
| GAAAGCATGTATTGTTCTAA+GGG | 0.472724 | 3.3:+27087323 | MS.gene76890:CDS |
| TGACAGTTATTATGGTTACC+TGG | 0.481280 | 3.3:+27087623 | MS.gene76890:CDS |
| TTTCAATTCCGGGTCGTGAG+AGG | 0.505017 | 3.3:+27087414 | MS.gene76890:CDS |
| GAATTGAAACAAAGCTTCAA+TGG | 0.515494 | 3.3:-27087400 | None:intergenic |
| CTATCTGGTGTGGAGGGACA+TGG | 0.522310 | 3.3:+27087282 | MS.gene76890:CDS |
| TTTGAGGATTGAACTCATAG+AGG | 0.540128 | 3.3:+27087599 | MS.gene76890:CDS |
| TTCAATTCCGGGTCGTGAGA+GGG | 0.542858 | 3.3:+27087415 | MS.gene76890:CDS |
| GACAGTTATTATGGTTACCT+GGG | 0.546401 | 3.3:+27087624 | MS.gene76890:CDS |
| ATTACATTGATGAAAAGTCA+TGG | 0.569559 | 3.3:+27087439 | MS.gene76890:CDS |
| TGTAATACCCTCTCACGACC+CGG | 0.576169 | 3.3:-27087422 | None:intergenic |
| GGCACTGACGCTATCTGGTG+TGG | 0.597359 | 3.3:+27087272 | MS.gene76890:CDS |
| ACTGACGCTATCTGGTGTGG+AGG | 0.630820 | 3.3:+27087275 | MS.gene76890:CDS |
| CTGACGCTATCTGGTGTGGA+GGG | 0.659888 | 3.3:+27087276 | MS.gene76890:CDS |
| AAAGCATGTATTGTTCTAAG+GGG | 0.661511 | 3.3:+27087324 | MS.gene76890:CDS |
| AAGAGGATCATTGATTGACA+AGG | 0.665322 | 3.3:+27087563 | MS.gene76890:CDS |
| TCTGGTGTGGAGGGACATGG+AGG | 0.689970 | 3.3:+27087285 | MS.gene76890:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATTACATTGATGAAAAGTCA+TGG | + | chr3.3:27087439-27087458 | MS.gene76890:CDS | 25.0% |
| ATAGAGGATGACAGTTATTA+TGG | + | chr3.3:27087615-27087634 | MS.gene76890:CDS | 30.0% | |
| GAATTGAAACAAAGCTTCAA+TGG | - | chr3.3:27087403-27087422 | None:intergenic | 30.0% | |
| ! | AAAGCATGTATTGTTCTAAG+GGG | + | chr3.3:27087324-27087343 | MS.gene76890:CDS | 30.0% |
| ! | GAAAGCATGTATTGTTCTAA+GGG | + | chr3.3:27087323-27087342 | MS.gene76890:CDS | 30.0% |
| ! | TGAAAGCATGTATTGTTCTA+AGG | + | chr3.3:27087322-27087341 | MS.gene76890:CDS | 30.0% |
| !! | TTGAAGCTTTGTTTCAATTC+CGG | + | chr3.3:27087403-27087422 | MS.gene76890:CDS | 30.0% |
| !!! | AGGAAGACAAACATTTTTTG+AGG | + | chr3.3:27087583-27087602 | MS.gene76890:CDS | 30.0% |
| ACTTCCTGTTAATGTAGGTT+TGG | + | chr3.3:27087374-27087393 | MS.gene76890:CDS | 35.0% | |
| CTTGAAAATTCTTGATTCCC+AGG | - | chr3.3:27087644-27087663 | None:intergenic | 35.0% | |
| GACAGTTATTATGGTTACCT+GGG | + | chr3.3:27087624-27087643 | MS.gene76890:CDS | 35.0% | |
| TACAAAAGCTGCAAAGTAAG+AGG | + | chr3.3:27087546-27087565 | MS.gene76890:CDS | 35.0% | |
| TCTAAGGGGAAAAACATCAA+TGG | + | chr3.3:27087338-27087357 | MS.gene76890:CDS | 35.0% | |
| TGACAGTTATTATGGTTACC+TGG | + | chr3.3:27087623-27087642 | MS.gene76890:CDS | 35.0% | |
| TTTGAGGATTGAACTCATAG+AGG | + | chr3.3:27087599-27087618 | MS.gene76890:CDS | 35.0% | |
| ! | AAGAGGATCATTGATTGACA+AGG | + | chr3.3:27087563-27087582 | MS.gene76890:CDS | 35.0% |
| ! | GTCATGGTTTTTCATAGCTT+TGG | + | chr3.3:27087455-27087474 | MS.gene76890:CDS | 35.0% |
| !! | AACATCAATGGCTTTGTTCT+TGG | + | chr3.3:27087350-27087369 | MS.gene76890:CDS | 35.0% |
| !! | TGAAGCTTTGTTTCAATTCC+GGG | + | chr3.3:27087404-27087423 | MS.gene76890:CDS | 35.0% |
| !!! | ATGGTTTTTCATAGCTTTGG+AGG | + | chr3.3:27087458-27087477 | MS.gene76890:CDS | 35.0% |
| !!! | TGGTTTTTCATAGCTTTGGA+GGG | + | chr3.3:27087459-27087478 | MS.gene76890:CDS | 35.0% |
| TTGGCACTTCCTGTTAATGT+AGG | + | chr3.3:27087369-27087388 | MS.gene76890:CDS | 40.0% | |
| GCAGCCAAACCTACATTAAC+AGG | - | chr3.3:27087381-27087400 | None:intergenic | 45.0% | |
| GGAGGGACATGGAGGTTATA+TGG | + | chr3.3:27087293-27087312 | MS.gene76890:CDS | 50.0% | |
| TGTAATACCCTCTCACGACC+CGG | - | chr3.3:27087425-27087444 | None:intergenic | 50.0% | |
| TTCAATTCCGGGTCGTGAGA+GGG | + | chr3.3:27087415-27087434 | MS.gene76890:CDS | 50.0% | |
| TTTCAATTCCGGGTCGTGAG+AGG | + | chr3.3:27087414-27087433 | MS.gene76890:CDS | 50.0% | |
| ACTGACGCTATCTGGTGTGG+AGG | + | chr3.3:27087275-27087294 | MS.gene76890:CDS | 55.0% | |
| CTATCTGGTGTGGAGGGACA+TGG | + | chr3.3:27087282-27087301 | MS.gene76890:CDS | 55.0% | |
| CTGACGCTATCTGGTGTGGA+GGG | + | chr3.3:27087276-27087295 | MS.gene76890:CDS | 55.0% | |
| TCTGGTGTGGAGGGACATGG+AGG | + | chr3.3:27087285-27087304 | MS.gene76890:CDS | 60.0% | |
| !! | GGCACTGACGCTATCTGGTG+TGG | + | chr3.3:27087272-27087291 | MS.gene76890:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 27087270 | 27087674 | 27087270 | ID=MS.gene76890 |
| chr3.3 | mRNA | 27087270 | 27087674 | 27087270 | ID=MS.gene76890.t1;Parent=MS.gene76890 |
| chr3.3 | exon | 27087270 | 27087674 | 27087270 | ID=MS.gene76890.t1.exon1;Parent=MS.gene76890.t1 |
| chr3.3 | CDS | 27087270 | 27087674 | 27087270 | ID=cds.MS.gene76890.t1;Parent=MS.gene76890.t1 |
| Gene Sequence |
| Protein sequence |
