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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016940 | AES60398.2 | 87.313 | 134 | 17 | 0 | 1 | 134 | 1 | 134 | 7.09e-74 | 226 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|---|---|
| Msa0016940 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016940 | MtrunA17_Chr5g0399781 | 51.852 | 54 | 25 | 1 | 3 | 56 | 12 | 64 | 1.43e-11 | 59.7 |
| Msa0016940 | MtrunA17_Chr4g0055611 | 66.667 | 36 | 12 | 0 | 3 | 38 | 12 | 47 | 7.05e-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 |
|---|
Find 20 sgRNAs with CRISPR-Local
Find 98 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAAAAGCTTCAAAGTCTA+TGG | 0.184389 | 1_1:+28054675 | Msa0016940:CDS |
| CCACAAGCATTACATAGTAT+TGG | 0.433061 | 1_1:-28054065 | None:intergenic |
| TGGAGATTGGTTTGAAAGCT+CGG | 0.447768 | 1_1:-28054192 | None:intergenic |
| GAAACTAAACTTTGGCGTAA+AGG | 0.456777 | 1_1:+28054029 | Msa0016940:CDS |
| TGCTTGTGGACTACATTTCA+AGG | 0.461822 | 1_1:+28054079 | Msa0016940:CDS |
| ATCAGACCTTGACGTTGAAA+AGG | 0.465983 | 1_1:+28054154 | Msa0016940:CDS |
| GGACTACATTTCAAGGCTAA+AGG | 0.474721 | 1_1:+28054086 | Msa0016940:CDS |
| TCTTCGGAAGATAGTTATCA+AGG | 0.478433 | 1_1:-28054112 | None:intergenic |
| TGTATACCAAGCAATGAGAT+AGG | 0.478624 | 1_1:+28054764 | Msa0016940:CDS |
| ATCGATTGTGAAGAATCAAA+TGG | 0.491491 | 1_1:+28054643 | Msa0016940:CDS |
| CATAGTATTGGCTTCTCATA+CGG | 0.492997 | 1_1:-28054053 | None:intergenic |
| GGAGATTGGTTTGAAAGCTC+GGG | 0.493147 | 1_1:-28054191 | None:intergenic |
| CCAAGCAATGAGATAGGCAT+TGG | 0.496933 | 1_1:+28054770 | Msa0016940:CDS |
| ATTTGATTCTTCACAATCGA+TGG | 0.523804 | 1_1:-28054641 | None:intergenic |
| ACAAAAGCTTCAAAGTCTAT+GGG | 0.556384 | 1_1:+28054676 | Msa0016940:CDS |
| CCAATGCCTATCTCATTGCT+TGG | 0.566560 | 1_1:-28054770 | None:intergenic |
| GAGCTTTCAAACCAATCTCC+AGG | 0.568278 | 1_1:+28054194 | Msa0016940:CDS |
| CCAATACTATGTAATGCTTG+TGG | 0.579274 | 1_1:+28054065 | Msa0016940:CDS |
| CTTCGGAAGATAGTTATCAA+GGG | 0.629882 | 1_1:-28054111 | None:intergenic |
| GATTGTGAAGAATCAAATGG+AGG | 0.680011 | 1_1:+28054646 | Msa0016940:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:28054254-28054273 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:28054255-28054274 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | + | chr1_1:28054615-28054634 | Msa0016940:intron | 15.0% |
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:28054254-28054273 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:28054255-28054274 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | + | chr1_1:28054615-28054634 | Msa0016940:intron | 15.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:28054215-28054234 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | - | chr1_1:28054256-28054275 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:28054309-28054328 | Msa0016940:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:28054360-28054379 | Msa0016940:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:28054453-28054472 | Msa0016940:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:28054454-28054473 | Msa0016940:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:28054595-28054614 | None:intergenic | 20.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:28054215-28054234 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | - | chr1_1:28054256-28054275 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:28054309-28054328 | Msa0016940:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:28054360-28054379 | Msa0016940:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:28054453-28054472 | Msa0016940:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:28054454-28054473 | Msa0016940:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:28054595-28054614 | None:intergenic | 20.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:28054021-28054040 | Msa0016940:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:28054208-28054227 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:28054320-28054339 | Msa0016940:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:28054400-28054419 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:28054401-28054420 | None:intergenic | 25.0% |
| ! | ATTCATTCAAAACCTAATAC+CGG | - | chr1_1:28054445-28054464 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:28054455-28054474 | Msa0016940:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:28054503-28054522 | None:intergenic | 25.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:28054021-28054040 | Msa0016940:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:28054208-28054227 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:28054320-28054339 | Msa0016940:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:28054400-28054419 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:28054401-28054420 | None:intergenic | 25.0% |
| ! | ATTCATTCAAAACCTAATAC+CGG | - | chr1_1:28054445-28054464 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:28054455-28054474 | Msa0016940:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:28054503-28054522 | None:intergenic | 25.0% |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:28054408-28054427 | None:intergenic | 30.0% | |
| TTCATTCAAAACCTAATACC+GGG | - | chr1_1:28054444-28054463 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:28054497-28054516 | Msa0016940:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:28054644-28054663 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:28054643-28054662 | Msa0016940:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:28054675-28054694 | Msa0016940:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:28054676-28054695 | Msa0016940:CDS | 30.0% | |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:28054408-28054427 | None:intergenic | 30.0% | |
| TTCATTCAAAACCTAATACC+GGG | - | chr1_1:28054444-28054463 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:28054497-28054516 | Msa0016940:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:28054644-28054663 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:28054643-28054662 | Msa0016940:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:28054675-28054694 | Msa0016940:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:28054676-28054695 | Msa0016940:CDS | 30.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:28054029-28054048 | Msa0016940:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:28054056-28054075 | None:intergenic | 35.0% |
| CCACAAGCATTACATAGTAT+TGG | - | chr1_1:28054068-28054087 | None:intergenic | 35.0% | |
| CCAATACTATGTAATGCTTG+TGG | + | chr1_1:28054065-28054084 | Msa0016940:CDS | 35.0% | |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:28054114-28054133 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:28054115-28054134 | None:intergenic | 35.0% | |
| !! | GTCTGATAACTGATTTTGCT+GGG | - | chr1_1:28054141-28054160 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:28054461-28054480 | Msa0016940:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:28054582-28054601 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:28054646-28054665 | Msa0016940:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:28054764-28054783 | Msa0016940:CDS | 35.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:28054029-28054048 | Msa0016940:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:28054056-28054075 | None:intergenic | 35.0% |
| CCACAAGCATTACATAGTAT+TGG | - | chr1_1:28054068-28054087 | None:intergenic | 35.0% | |
| CCAATACTATGTAATGCTTG+TGG | + | chr1_1:28054065-28054084 | Msa0016940:CDS | 35.0% | |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:28054114-28054133 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:28054115-28054134 | None:intergenic | 35.0% | |
| !! | GTCTGATAACTGATTTTGCT+GGG | - | chr1_1:28054141-28054160 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:28054461-28054480 | Msa0016940:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:28054582-28054601 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:28054646-28054665 | Msa0016940:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:28054764-28054783 | Msa0016940:CDS | 35.0% | |
| ! | TGCTTGTGGACTACATTTCA+AGG | + | chr1_1:28054079-28054098 | Msa0016940:CDS | 40.0% |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_1:28054086-28054105 | Msa0016940:CDS | 40.0% | |
| ! | TGATTTTGCTGGGATGTCTT+CGG | - | chr1_1:28054131-28054150 | None:intergenic | 40.0% |
| !! | GGTCTGATAACTGATTTTGC+TGG | - | chr1_1:28054142-28054161 | None:intergenic | 40.0% |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_1:28054154-28054173 | Msa0016940:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_1:28054163-28054182 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:28054195-28054214 | None:intergenic | 40.0% |
| AGCATTCATTTGAGTAGACC+CGG | + | chr1_1:28054423-28054442 | Msa0016940:intron | 40.0% | |
| ATTTGAGTAGACCCGGTATT+AGG | + | chr1_1:28054430-28054449 | Msa0016940:intron | 40.0% | |
| ! | TGCTTGTGGACTACATTTCA+AGG | + | chr1_1:28054079-28054098 | Msa0016940:CDS | 40.0% |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_1:28054086-28054105 | Msa0016940:CDS | 40.0% | |
| ! | TGATTTTGCTGGGATGTCTT+CGG | - | chr1_1:28054131-28054150 | None:intergenic | 40.0% |
| !! | GGTCTGATAACTGATTTTGC+TGG | - | chr1_1:28054142-28054161 | None:intergenic | 40.0% |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_1:28054154-28054173 | Msa0016940:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_1:28054163-28054182 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:28054195-28054214 | None:intergenic | 40.0% |
| AGCATTCATTTGAGTAGACC+CGG | + | chr1_1:28054423-28054442 | Msa0016940:intron | 40.0% | |
| ATTTGAGTAGACCCGGTATT+AGG | + | chr1_1:28054430-28054449 | Msa0016940:intron | 40.0% | |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:28054194-28054213 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:28054194-28054213 | Msa0016940:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:28054773-28054792 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:28054770-28054789 | Msa0016940:CDS | 45.0% | |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:28054194-28054213 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:28054194-28054213 | Msa0016940:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:28054773-28054792 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:28054770-28054789 | Msa0016940:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 28054017 | 28054838 | 28054017 | ID=Msa0016940;Name=Msa0016940 |
| chr1_1 | mRNA | 28054017 | 28054838 | 28054017 | ID=Msa0016940-mRNA-1;Parent=Msa0016940;Name=Msa0016940-mRNA-1;_AED=0.40;_eAED=0.40;_QI=0|0|0|1|1|1|2|0|134 |
| chr1_1 | exon | 28054017 | 28054215 | 28054017 | ID=Msa0016940-mRNA-1:exon:9407;Parent=Msa0016940-mRNA-1 |
| chr1_1 | exon | 28054633 | 28054838 | 28054633 | ID=Msa0016940-mRNA-1:exon:9408;Parent=Msa0016940-mRNA-1 |
| chr1_1 | CDS | 28054017 | 28054215 | 28054017 | ID=Msa0016940-mRNA-1:cds;Parent=Msa0016940-mRNA-1 |
| chr1_1 | CDS | 28054633 | 28054838 | 28054633 | ID=Msa0016940-mRNA-1:cds;Parent=Msa0016940-mRNA-1 |
| Gene Sequence |
| Protein sequence |
