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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016960 | AES60398.2 | 85.821 | 134 | 19 | 0 | 1 | 134 | 1 | 134 | 9.33e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016960 | G7I6L4 | 85.821 | 134 | 19 | 0 | 1 | 134 | 1 | 134 | 4.46e-73 | 223 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0016960 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016960 | MtrunA17_Chr5g0399781 | 51.852 | 54 | 25 | 1 | 3 | 56 | 12 | 64 | 1.32e-11 | 60.1 |
| Msa0016960 | MtrunA17_Chr4g0055611 | 66.667 | 36 | 12 | 0 | 3 | 38 | 12 | 47 | 6.78e-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 94 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAAAAGCTTCAAAGTCTA+TGG | 0.184389 | 1_1:+28070365 | Msa0016960:CDS |
| CCACAAGCATTACATAGTAT+TGG | 0.433061 | 1_1:-28069756 | None:intergenic |
| TGGAGATTGGTTTGAAAGCT+CGG | 0.447768 | 1_1:-28069883 | None:intergenic |
| GAAACTAAACTTTGGCGTAA+AGG | 0.456777 | 1_1:+28069720 | Msa0016960:CDS |
| TGCTTGTGGACTACATTTCA+AGG | 0.461822 | 1_1:+28069770 | Msa0016960:CDS |
| GGACTACATTTCAAGGCTAA+AGG | 0.474721 | 1_1:+28069777 | Msa0016960:CDS |
| TCTTCGGAAGATAGTTATCA+AGG | 0.478433 | 1_1:-28069803 | None:intergenic |
| TGTATACCAAGCAATGAGAT+AGG | 0.478624 | 1_1:+28070454 | Msa0016960:CDS |
| ATCAGACCTTGACATTGAAA+AGG | 0.486095 | 1_1:+28069845 | Msa0016960:CDS |
| ATCGATTGTGAAGAATCAAA+TGG | 0.491491 | 1_1:+28070333 | Msa0016960:CDS |
| CATAGTATTGGCTTCTCATA+CGG | 0.492997 | 1_1:-28069744 | None:intergenic |
| GGAGATTGGTTTGAAAGCTC+GGG | 0.493147 | 1_1:-28069882 | None:intergenic |
| CCAAGCAATGAGATAGGCAT+TGG | 0.496933 | 1_1:+28070460 | Msa0016960:CDS |
| ATTTGATTCTTCACAATCGA+TGG | 0.523804 | 1_1:-28070331 | None:intergenic |
| ACAAAAGCTTCAAAGTCTAT+GGG | 0.556384 | 1_1:+28070366 | Msa0016960:CDS |
| CCAATGCCTATCTCATTGCT+TGG | 0.566560 | 1_1:-28070460 | None:intergenic |
| GAGCTTTCAAACCAATCTCC+AGG | 0.568278 | 1_1:+28069885 | Msa0016960:CDS |
| CCAATACTATGTAATGCTTG+TGG | 0.579274 | 1_1:+28069756 | Msa0016960:CDS |
| CTTCGGAAGATAGTTATCAA+GGG | 0.629882 | 1_1:-28069802 | None:intergenic |
| GATTGTGAAGAATCAAATGG+AGG | 0.680011 | 1_1:+28070336 | Msa0016960:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:28069945-28069964 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:28069946-28069965 | None:intergenic | 15.0% |
| !!! | CTTTTAATTTTTTTGTAGAA+AGG | + | chr1_1:28070305-28070324 | Msa0016960:intron | 15.0% |
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:28069945-28069964 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:28069946-28069965 | None:intergenic | 15.0% |
| !!! | CTTTTAATTTTTTTGTAGAA+AGG | + | chr1_1:28070305-28070324 | Msa0016960:intron | 15.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:28069906-28069925 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | - | chr1_1:28069947-28069966 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:28070000-28070019 | Msa0016960:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:28070051-28070070 | Msa0016960:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:28070143-28070162 | Msa0016960:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:28070144-28070163 | Msa0016960:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:28070284-28070303 | None:intergenic | 20.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:28069906-28069925 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | - | chr1_1:28069947-28069966 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:28070000-28070019 | Msa0016960:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:28070051-28070070 | Msa0016960:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:28070143-28070162 | Msa0016960:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:28070144-28070163 | Msa0016960:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:28070284-28070303 | None:intergenic | 20.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:28069712-28069731 | Msa0016960:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:28069899-28069918 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:28070011-28070030 | Msa0016960:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:28070090-28070109 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:28070091-28070110 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:28070145-28070164 | Msa0016960:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:28070193-28070212 | None:intergenic | 25.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:28069712-28069731 | Msa0016960:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:28069899-28069918 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:28070011-28070030 | Msa0016960:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:28070090-28070109 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:28070091-28070110 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:28070145-28070164 | Msa0016960:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:28070193-28070212 | None:intergenic | 25.0% |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:28070098-28070117 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:28070187-28070206 | Msa0016960:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:28070334-28070353 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:28070333-28070352 | Msa0016960:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:28070365-28070384 | Msa0016960:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:28070366-28070385 | Msa0016960:CDS | 30.0% | |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:28070098-28070117 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:28070187-28070206 | Msa0016960:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:28070334-28070353 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:28070333-28070352 | Msa0016960:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:28070365-28070384 | Msa0016960:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:28070366-28070385 | Msa0016960:CDS | 30.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:28069720-28069739 | Msa0016960:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:28069747-28069766 | None:intergenic | 35.0% |
| CCACAAGCATTACATAGTAT+TGG | - | chr1_1:28069759-28069778 | None:intergenic | 35.0% | |
| CCAATACTATGTAATGCTTG+TGG | + | chr1_1:28069756-28069775 | Msa0016960:CDS | 35.0% | |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:28069805-28069824 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:28069806-28069825 | None:intergenic | 35.0% | |
| !! | GTCTGATAACTGATTTTGCT+GGG | - | chr1_1:28069832-28069851 | None:intergenic | 35.0% |
| ATCAGACCTTGACATTGAAA+AGG | + | chr1_1:28069845-28069864 | Msa0016960:CDS | 35.0% | |
| ! | CAGATTCCTTTTCAATGTCA+AGG | - | chr1_1:28069854-28069873 | None:intergenic | 35.0% |
| AGCATTCATTTGAGTAGACA+CGG | + | chr1_1:28070113-28070132 | Msa0016960:intron | 35.0% | |
| ATTTGAGTAGACACGGTATT+AGG | + | chr1_1:28070120-28070139 | Msa0016960:intron | 35.0% | |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:28070151-28070170 | Msa0016960:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:28070271-28070290 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:28070336-28070355 | Msa0016960:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:28070454-28070473 | Msa0016960:CDS | 35.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:28069720-28069739 | Msa0016960:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:28069747-28069766 | None:intergenic | 35.0% |
| CCACAAGCATTACATAGTAT+TGG | - | chr1_1:28069759-28069778 | None:intergenic | 35.0% | |
| CCAATACTATGTAATGCTTG+TGG | + | chr1_1:28069756-28069775 | Msa0016960:CDS | 35.0% | |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:28069805-28069824 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:28069806-28069825 | None:intergenic | 35.0% | |
| !! | GTCTGATAACTGATTTTGCT+GGG | - | chr1_1:28069832-28069851 | None:intergenic | 35.0% |
| ATCAGACCTTGACATTGAAA+AGG | + | chr1_1:28069845-28069864 | Msa0016960:CDS | 35.0% | |
| ! | CAGATTCCTTTTCAATGTCA+AGG | - | chr1_1:28069854-28069873 | None:intergenic | 35.0% |
| AGCATTCATTTGAGTAGACA+CGG | + | chr1_1:28070113-28070132 | Msa0016960:intron | 35.0% | |
| ATTTGAGTAGACACGGTATT+AGG | + | chr1_1:28070120-28070139 | Msa0016960:intron | 35.0% | |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:28070151-28070170 | Msa0016960:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:28070271-28070290 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:28070336-28070355 | Msa0016960:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:28070454-28070473 | Msa0016960:CDS | 35.0% | |
| ! | TGCTTGTGGACTACATTTCA+AGG | + | chr1_1:28069770-28069789 | Msa0016960:CDS | 40.0% |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_1:28069777-28069796 | Msa0016960:CDS | 40.0% | |
| ! | TGATTTTGCTGGGATGTCTT+CGG | - | chr1_1:28069822-28069841 | None:intergenic | 40.0% |
| !! | GGTCTGATAACTGATTTTGC+TGG | - | chr1_1:28069833-28069852 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:28069886-28069905 | None:intergenic | 40.0% |
| ! | TGCTTGTGGACTACATTTCA+AGG | + | chr1_1:28069770-28069789 | Msa0016960:CDS | 40.0% |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_1:28069777-28069796 | Msa0016960:CDS | 40.0% | |
| ! | TGATTTTGCTGGGATGTCTT+CGG | - | chr1_1:28069822-28069841 | None:intergenic | 40.0% |
| !! | GGTCTGATAACTGATTTTGC+TGG | - | chr1_1:28069833-28069852 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:28069886-28069905 | None:intergenic | 40.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:28069885-28069904 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:28069885-28069904 | Msa0016960:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:28070463-28070482 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:28070460-28070479 | Msa0016960:CDS | 45.0% | |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:28069885-28069904 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:28069885-28069904 | Msa0016960:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:28070463-28070482 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:28070460-28070479 | Msa0016960:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 28069708 | 28070528 | 28069708 | ID=Msa0016960;Name=Msa0016960 |
| chr1_1 | mRNA | 28069708 | 28070528 | 28069708 | ID=Msa0016960-mRNA-1;Parent=Msa0016960;Name=Msa0016960-mRNA-1;_AED=0.40;_eAED=0.40;_QI=0|0|0|1|1|1|2|0|134 |
| chr1_1 | exon | 28069708 | 28069906 | 28069708 | ID=Msa0016960-mRNA-1:exon:9409;Parent=Msa0016960-mRNA-1 |
| chr1_1 | exon | 28070323 | 28070528 | 28070323 | ID=Msa0016960-mRNA-1:exon:9410;Parent=Msa0016960-mRNA-1 |
| chr1_1 | CDS | 28069708 | 28069906 | 28069708 | ID=Msa0016960-mRNA-1:cds;Parent=Msa0016960-mRNA-1 |
| chr1_1 | CDS | 28070323 | 28070528 | 28070323 | ID=Msa0016960-mRNA-1:cds;Parent=Msa0016960-mRNA-1 |
| Gene Sequence |
| Protein sequence |
