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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0065250 | AES60398.2 | 86.567 | 134 | 18 | 0 | 1 | 134 | 1 | 134 | 8.55e-73 | 223 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0065250 | G7I6L4 | 86.567 | 134 | 18 | 0 | 1 | 134 | 1 | 134 | 4.08e-73 | 223 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0065250 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0065250 | MtrunA17_Chr5g0399781 | 51.852 | 54 | 25 | 1 | 3 | 56 | 12 | 64 | 1.04e-11 | 60.1 |
| Msa0065250 | MtrunA17_Chr4g0055611 | 66.667 | 36 | 12 | 0 | 3 | 38 | 12 | 47 | 4.88e-11 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 86 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAAAAGCTTCAAAGTCTA+TGG | 0.184389 | 1_2:-27217513 | Msa0065250:CDS |
| CGCTTGTGGACTACATTTCA+AGG | 0.405648 | 1_2:-27218117 | Msa0065250:CDS |
| TGGAGATTGGTTTGAAAGCT+CGG | 0.447768 | 1_2:+27218004 | None:intergenic |
| CCACAAGCGTTACATAGTAT+TGG | 0.448818 | 1_2:+27218131 | None:intergenic |
| GAAACTAAACTTTGGCGTAA+AGG | 0.456777 | 1_2:-27218167 | Msa0065250:CDS |
| TGTATATCAAGCAATGAGAT+AGG | 0.457365 | 1_2:-27217424 | Msa0065250:CDS |
| ATCAGACCTTGACGTTGAAA+AGG | 0.465983 | 1_2:-27218042 | Msa0065250:CDS |
| GGACTACATTTCAAGGCTAA+AGG | 0.474721 | 1_2:-27218110 | Msa0065250:CDS |
| TCTTCGGAAGATAGTTATCA+AGG | 0.478433 | 1_2:+27218084 | None:intergenic |
| CATAGTATTGGCTTCTCATA+CGG | 0.490978 | 1_2:+27218143 | None:intergenic |
| ATCGATTGTGAAGAATCAAA+TGG | 0.491491 | 1_2:-27217545 | Msa0065250:CDS |
| GGAGATTGGTTTGAAAGCTC+GGG | 0.493147 | 1_2:+27218005 | None:intergenic |
| TCAAGCAATGAGATAGGCAT+TGG | 0.509686 | 1_2:-27217418 | Msa0065250:CDS |
| ATTTGATTCTTCACAATCGA+TGG | 0.523804 | 1_2:+27217547 | None:intergenic |
| ACAAAAGCTTCAAAGTCTAT+GGG | 0.556384 | 1_2:-27217512 | Msa0065250:CDS |
| GAGCTTTCAAACCAATCTCC+AGG | 0.568278 | 1_2:-27218002 | Msa0065250:intron |
| CCAATACTATGTAACGCTTG+TGG | 0.608782 | 1_2:-27218131 | Msa0065250:CDS |
| CTTCGGAAGATAGTTATCAA+GGG | 0.629882 | 1_2:+27218085 | None:intergenic |
| GATTGTGAAGAATCAAATGG+AGG | 0.680011 | 1_2:-27217542 | Msa0065250:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTATATTTGTTGAAAAATG+GGG | + | chr1_2:27217609-27217628 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | + | chr1_2:27217610-27217629 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | - | chr1_2:27217978-27217997 | Msa0065250:intron | 15.0% |
| !!! | TTTATATTTGTTGAAAAATG+GGG | + | chr1_2:27217609-27217628 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | + | chr1_2:27217610-27217629 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | - | chr1_2:27217978-27217997 | Msa0065250:intron | 15.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | + | chr1_2:27217570-27217589 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | + | chr1_2:27217611-27217630 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | - | chr1_2:27217664-27217683 | Msa0065250:intron | 20.0% |
| !! | ATATGCTATTAATTAAAGTG+TGG | + | chr1_2:27217891-27217910 | None:intergenic | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | + | chr1_2:27217958-27217977 | None:intergenic | 20.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | + | chr1_2:27217570-27217589 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | + | chr1_2:27217611-27217630 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | - | chr1_2:27217664-27217683 | Msa0065250:intron | 20.0% |
| !! | ATATGCTATTAATTAAAGTG+TGG | + | chr1_2:27217891-27217910 | None:intergenic | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | + | chr1_2:27217958-27217977 | None:intergenic | 20.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | - | chr1_2:27217376-27217395 | Msa0065250:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | + | chr1_2:27217563-27217582 | None:intergenic | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | + | chr1_2:27217756-27217775 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | + | chr1_2:27217757-27217776 | None:intergenic | 25.0% |
| ! | GATATAAGATTGAGATTGAT+TGG | + | chr1_2:27217869-27217888 | None:intergenic | 25.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | - | chr1_2:27217376-27217395 | Msa0065250:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | + | chr1_2:27217563-27217582 | None:intergenic | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | + | chr1_2:27217756-27217775 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | + | chr1_2:27217757-27217776 | None:intergenic | 25.0% |
| ! | GATATAAGATTGAGATTGAT+TGG | + | chr1_2:27217869-27217888 | None:intergenic | 25.0% |
| ! | TTTCTTAAGAGGTACAATTG+AGG | - | chr1_2:27217675-27217694 | Msa0065250:intron | 30.0% |
| ATGCTCTTATTGACAATGAA+AGG | + | chr1_2:27217764-27217783 | None:intergenic | 30.0% | |
| ATGCAAATACAACAAGAGAA+TGG | - | chr1_2:27217828-27217847 | Msa0065250:intron | 30.0% | |
| AAATACAACAAGAGAATGGT+TGG | - | chr1_2:27217832-27217851 | Msa0065250:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | + | chr1_2:27218007-27218026 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | - | chr1_2:27218006-27218025 | Msa0065250:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | - | chr1_2:27218038-27218057 | Msa0065250:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | - | chr1_2:27218039-27218058 | Msa0065250:CDS | 30.0% | |
| TGTATATCAAGCAATGAGAT+AGG | - | chr1_2:27218127-27218146 | Msa0065250:CDS | 30.0% | |
| ! | TTTCTTAAGAGGTACAATTG+AGG | - | chr1_2:27217675-27217694 | Msa0065250:intron | 30.0% |
| ATGCTCTTATTGACAATGAA+AGG | + | chr1_2:27217764-27217783 | None:intergenic | 30.0% | |
| ATGCAAATACAACAAGAGAA+TGG | - | chr1_2:27217828-27217847 | Msa0065250:intron | 30.0% | |
| AAATACAACAAGAGAATGGT+TGG | - | chr1_2:27217832-27217851 | Msa0065250:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | + | chr1_2:27218007-27218026 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | - | chr1_2:27218006-27218025 | Msa0065250:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | - | chr1_2:27218038-27218057 | Msa0065250:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | - | chr1_2:27218039-27218058 | Msa0065250:CDS | 30.0% | |
| TGTATATCAAGCAATGAGAT+AGG | - | chr1_2:27218127-27218146 | Msa0065250:CDS | 30.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | - | chr1_2:27217384-27217403 | Msa0065250:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | + | chr1_2:27217411-27217430 | None:intergenic | 35.0% |
| CTTCGGAAGATAGTTATCAA+GGG | + | chr1_2:27217469-27217488 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | + | chr1_2:27217470-27217489 | None:intergenic | 35.0% | |
| !! | GTCTGATAACTGATTTTGCT+GGG | + | chr1_2:27217496-27217515 | None:intergenic | 35.0% |
| AGCATTCATTTGAGTAGACA+CGG | - | chr1_2:27217779-27217798 | Msa0065250:intron | 35.0% | |
| ATTTGAGTAGACACGGTATT+AGG | - | chr1_2:27217786-27217805 | Msa0065250:intron | 35.0% | |
| TCATACACGGTACATATCTA+TGG | + | chr1_2:27217945-27217964 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | - | chr1_2:27218009-27218028 | Msa0065250:CDS | 35.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | - | chr1_2:27217384-27217403 | Msa0065250:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | + | chr1_2:27217411-27217430 | None:intergenic | 35.0% |
| CTTCGGAAGATAGTTATCAA+GGG | + | chr1_2:27217469-27217488 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | + | chr1_2:27217470-27217489 | None:intergenic | 35.0% | |
| !! | GTCTGATAACTGATTTTGCT+GGG | + | chr1_2:27217496-27217515 | None:intergenic | 35.0% |
| AGCATTCATTTGAGTAGACA+CGG | - | chr1_2:27217779-27217798 | Msa0065250:intron | 35.0% | |
| ATTTGAGTAGACACGGTATT+AGG | - | chr1_2:27217786-27217805 | Msa0065250:intron | 35.0% | |
| TCATACACGGTACATATCTA+TGG | + | chr1_2:27217945-27217964 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | - | chr1_2:27218009-27218028 | Msa0065250:CDS | 35.0% | |
| CCACAAGCGTTACATAGTAT+TGG | + | chr1_2:27217423-27217442 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | - | chr1_2:27217420-27217439 | Msa0065250:CDS | 40.0% | |
| GGACTACATTTCAAGGCTAA+AGG | - | chr1_2:27217441-27217460 | Msa0065250:CDS | 40.0% | |
| ! | TGATTTTGCTGGGATGTCTT+CGG | + | chr1_2:27217486-27217505 | None:intergenic | 40.0% |
| !! | GGTCTGATAACTGATTTTGC+TGG | + | chr1_2:27217497-27217516 | None:intergenic | 40.0% |
| ATCAGACCTTGACGTTGAAA+AGG | - | chr1_2:27217509-27217528 | Msa0065250:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | + | chr1_2:27217518-27217537 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | + | chr1_2:27217550-27217569 | None:intergenic | 40.0% |
| TCAAGCAATGAGATAGGCAT+TGG | - | chr1_2:27218133-27218152 | Msa0065250:CDS | 40.0% | |
| CCACAAGCGTTACATAGTAT+TGG | + | chr1_2:27217423-27217442 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | - | chr1_2:27217420-27217439 | Msa0065250:CDS | 40.0% | |
| GGACTACATTTCAAGGCTAA+AGG | - | chr1_2:27217441-27217460 | Msa0065250:CDS | 40.0% | |
| ! | TGATTTTGCTGGGATGTCTT+CGG | + | chr1_2:27217486-27217505 | None:intergenic | 40.0% |
| !! | GGTCTGATAACTGATTTTGC+TGG | + | chr1_2:27217497-27217516 | None:intergenic | 40.0% |
| ATCAGACCTTGACGTTGAAA+AGG | - | chr1_2:27217509-27217528 | Msa0065250:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | + | chr1_2:27217518-27217537 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | + | chr1_2:27217550-27217569 | None:intergenic | 40.0% |
| TCAAGCAATGAGATAGGCAT+TGG | - | chr1_2:27218133-27218152 | Msa0065250:CDS | 40.0% | |
| ! | CGCTTGTGGACTACATTTCA+AGG | - | chr1_2:27217434-27217453 | Msa0065250:CDS | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | + | chr1_2:27217549-27217568 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | - | chr1_2:27217549-27217568 | Msa0065250:CDS | 45.0% | |
| ! | CGCTTGTGGACTACATTTCA+AGG | - | chr1_2:27217434-27217453 | Msa0065250:CDS | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | + | chr1_2:27217549-27217568 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | - | chr1_2:27217549-27217568 | Msa0065250:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 27217372 | 27218201 | 27217372 | ID=Msa0065250;Name=Msa0065250 |
| chr1_2 | mRNA | 27217372 | 27218201 | 27217372 | ID=Msa0065250-mRNA-1;Parent=Msa0065250;Name=Msa0065250-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0|0|0|1|1|1|2|0|134 |
| chr1_2 | exon | 27218003 | 27218201 | 27218003 | ID=Msa0065250-mRNA-1:exon:9515;Parent=Msa0065250-mRNA-1 |
| chr1_2 | exon | 27217372 | 27217577 | 27217372 | ID=Msa0065250-mRNA-1:exon:9514;Parent=Msa0065250-mRNA-1 |
| chr1_2 | CDS | 27218003 | 27218201 | 27218003 | ID=Msa0065250-mRNA-1:cds;Parent=Msa0065250-mRNA-1 |
| chr1_2 | CDS | 27217372 | 27217577 | 27217372 | ID=Msa0065250-mRNA-1:cds;Parent=Msa0065250-mRNA-1 |
| Gene Sequence |
| Protein sequence |
