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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0065260 | AES60398.2 | 86.290 | 124 | 17 | 0 | 1 | 124 | 1 | 124 | 7.40e-66 | 206 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0065260 | G7I6L4 | 86.290 | 124 | 17 | 0 | 1 | 124 | 1 | 124 | 3.53e-66 | 206 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0065260 | TF | C2C2-GATA |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0065260 | MtrunA17_Chr5g0399781 | 50.000 | 54 | 26 | 1 | 3 | 56 | 12 | 64 | 8.49e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 104 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAAAAGCTTCAAAGTCTA+TGG | 0.184389 | 1_2:+27245278 | Msa0065260:CDS |
| CCACAAGCATTACATAGTAT+TGG | 0.402584 | 1_2:-27244623 | None:intergenic |
| TGGAGTTTGGTTTGAAAGCT+CGG | 0.432563 | 1_2:-27244750 | None:intergenic |
| GAAACTAAACTTTGGCGTAA+AGG | 0.456777 | 1_2:+27244587 | Msa0065260:CDS |
| TGCTTGTGGACTACATTTCA+AGG | 0.461822 | 1_2:+27244637 | Msa0065260:CDS |
| ATCAGACCTTGACGTTGAAA+AGG | 0.465983 | 1_2:+27244712 | Msa0065260:CDS |
| GGACTACATTTCAAGGCTAA+AGG | 0.474721 | 1_2:+27244644 | Msa0065260:CDS |
| TCTTCGGAAGATAGTTATCA+AGG | 0.478433 | 1_2:-27244670 | None:intergenic |
| TGTATACCAAGCAATGAGAT+AGG | 0.478624 | 1_2:+27245367 | Msa0065260:CDS |
| ATGCCGATTCACAATATACT+AGG | 0.487870 | 1_2:-27245438 | None:intergenic |
| ATCGATTGTGAAGAATCAAA+TGG | 0.491491 | 1_2:+27245246 | Msa0065260:CDS |
| CCAAGCAATGAGATAGGCAT+TGG | 0.496933 | 1_2:+27245373 | Msa0065260:CDS |
| GGAGTTTGGTTTGAAAGCTC+GGG | 0.497343 | 1_2:-27244749 | None:intergenic |
| TAGCCTAGTATATTGTGAAT+CGG | 0.518104 | 1_2:+27245435 | Msa0065260:CDS |
| ATTTGATTCTTCACAATCGA+TGG | 0.523804 | 1_2:-27245244 | None:intergenic |
| CATAGTATTGGATTCTCATA+CGG | 0.534177 | 1_2:-27244611 | None:intergenic |
| ACAAAAGCTTCAAAGTCTAT+GGG | 0.556384 | 1_2:+27245279 | Msa0065260:CDS |
| CCAATGCCTATCTCATTGCT+TGG | 0.566560 | 1_2:-27245373 | None:intergenic |
| CCAATACTATGTAATGCTTG+TGG | 0.568792 | 1_2:+27244623 | Msa0065260:CDS |
| GAGCTTTCAAACCAAACTCC+AGG | 0.591419 | 1_2:+27244752 | Msa0065260:CDS |
| CTTCGGAAGATAGTTATCAA+GGG | 0.629882 | 1_2:-27244669 | None:intergenic |
| GATTGTGAAGAATCAAATGG+AGG | 0.680011 | 1_2:+27245249 | Msa0065260:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ACTTTAAATTTTTTGTAGAA+AGG | + | chr1_2:27245218-27245237 | Msa0065260:intron | 15.0% |
| !!! | ACTTTAAATTTTTTGTAGAA+AGG | + | chr1_2:27245218-27245237 | Msa0065260:intron | 15.0% |
| !!! | TATTGCATTTTTTTATTACC+TGG | - | chr1_2:27244773-27244792 | None:intergenic | 20.0% |
| !! | AATAGATGATATAAAATGGA+GGG | - | chr1_2:27244854-27244873 | None:intergenic | 20.0% |
| !! | AAATAGATGATATAAAATGG+AGG | - | chr1_2:27244855-27244874 | None:intergenic | 20.0% |
| !! | GGAAAATAGATGATATAAAA+TGG | - | chr1_2:27244858-27244877 | None:intergenic | 20.0% |
| !! | TTAGATCAATGCATTATTAA+AGG | - | chr1_2:27244879-27244898 | None:intergenic | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_2:27244898-27244917 | Msa0065260:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_2:27244991-27245010 | Msa0065260:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_2:27244992-27245011 | Msa0065260:intron | 20.0% |
| !! | AAATTTATGCTATTAAAGTG+TGG | - | chr1_2:27245135-27245154 | None:intergenic | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_2:27245198-27245217 | None:intergenic | 20.0% |
| !!! | TATTGCATTTTTTTATTACC+TGG | - | chr1_2:27244773-27244792 | None:intergenic | 20.0% |
| !! | AATAGATGATATAAAATGGA+GGG | - | chr1_2:27244854-27244873 | None:intergenic | 20.0% |
| !! | AAATAGATGATATAAAATGG+AGG | - | chr1_2:27244855-27244874 | None:intergenic | 20.0% |
| !! | GGAAAATAGATGATATAAAA+TGG | - | chr1_2:27244858-27244877 | None:intergenic | 20.0% |
| !! | TTAGATCAATGCATTATTAA+AGG | - | chr1_2:27244879-27244898 | None:intergenic | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_2:27244898-27244917 | Msa0065260:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_2:27244991-27245010 | Msa0065260:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_2:27244992-27245011 | Msa0065260:intron | 20.0% |
| !! | AAATTTATGCTATTAAAGTG+TGG | - | chr1_2:27245135-27245154 | None:intergenic | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_2:27245198-27245217 | None:intergenic | 20.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_2:27244579-27244598 | Msa0065260:CDS | 25.0% |
| !!! | TTTTTTTATTACCTGGAGTT+TGG | - | chr1_2:27244766-27244785 | None:intergenic | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_2:27244938-27244957 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_2:27244939-27244958 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_2:27244993-27245012 | Msa0065260:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_2:27245041-27245060 | None:intergenic | 25.0% |
| ! | GATATAAGATTGAGATTGAT+TGG | - | chr1_2:27245113-27245132 | None:intergenic | 25.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_2:27244579-27244598 | Msa0065260:CDS | 25.0% |
| !!! | TTTTTTTATTACCTGGAGTT+TGG | - | chr1_2:27244766-27244785 | None:intergenic | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_2:27244938-27244957 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_2:27244939-27244958 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_2:27244993-27245012 | Msa0065260:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_2:27245041-27245060 | None:intergenic | 25.0% |
| ! | GATATAAGATTGAGATTGAT+TGG | - | chr1_2:27245113-27245132 | None:intergenic | 25.0% |
| ! | CATAGTATTGGATTCTCATA+CGG | - | chr1_2:27244614-27244633 | None:intergenic | 30.0% |
| ATGCTCATATTGACAATGAA+AGG | - | chr1_2:27244946-27244965 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_2:27245035-27245054 | Msa0065260:intron | 30.0% | |
| ATGCAAATACAACAAGAGAA+TGG | + | chr1_2:27245072-27245091 | Msa0065260:intron | 30.0% | |
| AAATACAACAAGAGAATGGT+TGG | + | chr1_2:27245076-27245095 | Msa0065260:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_2:27245247-27245266 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_2:27245246-27245265 | Msa0065260:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_2:27245278-27245297 | Msa0065260:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_2:27245279-27245298 | Msa0065260:CDS | 30.0% | |
| TAGCCTAGTATATTGTGAAT+CGG | + | chr1_2:27245435-27245454 | Msa0065260:CDS | 30.0% | |
| ! | CATAGTATTGGATTCTCATA+CGG | - | chr1_2:27244614-27244633 | None:intergenic | 30.0% |
| ATGCTCATATTGACAATGAA+AGG | - | chr1_2:27244946-27244965 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_2:27245035-27245054 | Msa0065260:intron | 30.0% | |
| ATGCAAATACAACAAGAGAA+TGG | + | chr1_2:27245072-27245091 | Msa0065260:intron | 30.0% | |
| AAATACAACAAGAGAATGGT+TGG | + | chr1_2:27245076-27245095 | Msa0065260:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_2:27245247-27245266 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_2:27245246-27245265 | Msa0065260:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_2:27245278-27245297 | Msa0065260:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_2:27245279-27245298 | Msa0065260:CDS | 30.0% | |
| TAGCCTAGTATATTGTGAAT+CGG | + | chr1_2:27245435-27245454 | Msa0065260:CDS | 30.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_2:27244587-27244606 | Msa0065260:CDS | 35.0% | |
| CCACAAGCATTACATAGTAT+TGG | - | chr1_2:27244626-27244645 | None:intergenic | 35.0% | |
| CCAATACTATGTAATGCTTG+TGG | + | chr1_2:27244623-27244642 | Msa0065260:CDS | 35.0% | |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_2:27244672-27244691 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_2:27244673-27244692 | None:intergenic | 35.0% | |
| !! | GTCTGATAACTGATTTTGCT+GGG | - | chr1_2:27244699-27244718 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_2:27244999-27245018 | Msa0065260:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_2:27245185-27245204 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_2:27245249-27245268 | Msa0065260:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_2:27245367-27245386 | Msa0065260:CDS | 35.0% | |
| !! | ATGCCGATTCACAATATACT+AGG | - | chr1_2:27245441-27245460 | None:intergenic | 35.0% |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_2:27244587-27244606 | Msa0065260:CDS | 35.0% | |
| CCACAAGCATTACATAGTAT+TGG | - | chr1_2:27244626-27244645 | None:intergenic | 35.0% | |
| CCAATACTATGTAATGCTTG+TGG | + | chr1_2:27244623-27244642 | Msa0065260:CDS | 35.0% | |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_2:27244672-27244691 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_2:27244673-27244692 | None:intergenic | 35.0% | |
| !! | GTCTGATAACTGATTTTGCT+GGG | - | chr1_2:27244699-27244718 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_2:27244999-27245018 | Msa0065260:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_2:27245185-27245204 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_2:27245249-27245268 | Msa0065260:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_2:27245367-27245386 | Msa0065260:CDS | 35.0% | |
| !! | ATGCCGATTCACAATATACT+AGG | - | chr1_2:27245441-27245460 | None:intergenic | 35.0% |
| ! | TGCTTGTGGACTACATTTCA+AGG | + | chr1_2:27244637-27244656 | Msa0065260:CDS | 40.0% |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_2:27244644-27244663 | Msa0065260:CDS | 40.0% | |
| ! | TGATTTTGCTGGGATGTCTT+CGG | - | chr1_2:27244689-27244708 | None:intergenic | 40.0% |
| !! | GGTCTGATAACTGATTTTGC+TGG | - | chr1_2:27244700-27244719 | None:intergenic | 40.0% |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_2:27244712-27244731 | Msa0065260:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_2:27244721-27244740 | None:intergenic | 40.0% |
| !! | TGGAGTTTGGTTTGAAAGCT+CGG | - | chr1_2:27244753-27244772 | None:intergenic | 40.0% |
| AGCATTCATTTGCGTAGACA+CGG | + | chr1_2:27244961-27244980 | Msa0065260:intron | 40.0% | |
| ATTTGCGTAGACACGGTATT+AGG | + | chr1_2:27244968-27244987 | Msa0065260:intron | 40.0% | |
| ! | TGCTTGTGGACTACATTTCA+AGG | + | chr1_2:27244637-27244656 | Msa0065260:CDS | 40.0% |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_2:27244644-27244663 | Msa0065260:CDS | 40.0% | |
| ! | TGATTTTGCTGGGATGTCTT+CGG | - | chr1_2:27244689-27244708 | None:intergenic | 40.0% |
| !! | GGTCTGATAACTGATTTTGC+TGG | - | chr1_2:27244700-27244719 | None:intergenic | 40.0% |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_2:27244712-27244731 | Msa0065260:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_2:27244721-27244740 | None:intergenic | 40.0% |
| !! | TGGAGTTTGGTTTGAAAGCT+CGG | - | chr1_2:27244753-27244772 | None:intergenic | 40.0% |
| AGCATTCATTTGCGTAGACA+CGG | + | chr1_2:27244961-27244980 | Msa0065260:intron | 40.0% | |
| ATTTGCGTAGACACGGTATT+AGG | + | chr1_2:27244968-27244987 | Msa0065260:intron | 40.0% | |
| !! | GGAGTTTGGTTTGAAAGCTC+GGG | - | chr1_2:27244752-27244771 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAAACTCC+AGG | + | chr1_2:27244752-27244771 | Msa0065260:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_2:27245376-27245395 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_2:27245373-27245392 | Msa0065260:CDS | 45.0% | |
| !! | GGAGTTTGGTTTGAAAGCTC+GGG | - | chr1_2:27244752-27244771 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAAACTCC+AGG | + | chr1_2:27244752-27244771 | Msa0065260:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_2:27245376-27245395 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_2:27245373-27245392 | Msa0065260:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 27244575 | 27245462 | 27244575 | ID=Msa0065260;Name=Msa0065260 |
| chr1_2 | mRNA | 27244575 | 27245462 | 27244575 | ID=Msa0065260-mRNA-1;Parent=Msa0065260;Name=Msa0065260-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0|0|0|1|1|1|2|0|141 |
| chr1_2 | exon | 27244575 | 27244773 | 27244575 | ID=Msa0065260-mRNA-1:exon:9512;Parent=Msa0065260-mRNA-1 |
| chr1_2 | exon | 27245236 | 27245462 | 27245236 | ID=Msa0065260-mRNA-1:exon:9513;Parent=Msa0065260-mRNA-1 |
| chr1_2 | CDS | 27244575 | 27244773 | 27244575 | ID=Msa0065260-mRNA-1:cds;Parent=Msa0065260-mRNA-1 |
| chr1_2 | CDS | 27245236 | 27245462 | 27245236 | ID=Msa0065260-mRNA-1:cds;Parent=Msa0065260-mRNA-1 |
| Gene Sequence |
| Protein sequence |
