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 |
|---|
| 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 |
|---|---|---|
| Msa0016870 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016870 | MtrunA17_Chr5g0399781 | 51.852 | 54 | 25 | 1 | 3 | 56 | 12 | 64 | 1.43e-11 | 59.7 |
| Msa0016870 | 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:+27982674 | Msa0016870:CDS |
| CGCTTGTGGACTACATTTCA+AGG | 0.405648 | 1_1:+27982078 | Msa0016870:CDS |
| TGGAGATTGGTTTGAAAGCT+CGG | 0.447768 | 1_1:-27982191 | None:intergenic |
| CCACAAGCGTTACATAGTAT+TGG | 0.448818 | 1_1:-27982064 | None:intergenic |
| GAAACTAAACTTTGGCGTAA+AGG | 0.456777 | 1_1:+27982028 | Msa0016870:CDS |
| ATCAGACCTTGACGTTGAAA+AGG | 0.465983 | 1_1:+27982153 | Msa0016870:CDS |
| GGACTACATTTCAAGGCTAA+AGG | 0.474721 | 1_1:+27982085 | Msa0016870:CDS |
| TCTTCGGAAGATAGTTATCA+AGG | 0.478433 | 1_1:-27982111 | None:intergenic |
| TGTATACCAAGCAATGAGAT+AGG | 0.478624 | 1_1:+27982763 | Msa0016870:CDS |
| CATAGTATTGGCTTCTCATA+CGG | 0.490978 | 1_1:-27982052 | None:intergenic |
| ATCGATTGTGAAGAATCAAA+TGG | 0.491491 | 1_1:+27982642 | Msa0016870:CDS |
| GGAGATTGGTTTGAAAGCTC+GGG | 0.493147 | 1_1:-27982190 | None:intergenic |
| CCAAGCAATGAGATAGGCAT+TGG | 0.496933 | 1_1:+27982769 | Msa0016870:CDS |
| ATTTGATTCTTCACAATCGA+TGG | 0.523804 | 1_1:-27982640 | None:intergenic |
| ACAAAAGCTTCAAAGTCTAT+GGG | 0.556384 | 1_1:+27982675 | Msa0016870:CDS |
| CCAATGCCTATCTCATTGCT+TGG | 0.566560 | 1_1:-27982769 | None:intergenic |
| GAGCTTTCAAACCAATCTCC+AGG | 0.568278 | 1_1:+27982193 | Msa0016870:CDS |
| CCAATACTATGTAACGCTTG+TGG | 0.608782 | 1_1:+27982064 | Msa0016870:CDS |
| CTTCGGAAGATAGTTATCAA+GGG | 0.629882 | 1_1:-27982110 | None:intergenic |
| GATTGTGAAGAATCAAATGG+AGG | 0.680011 | 1_1:+27982645 | Msa0016870:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:27982253-27982272 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:27982254-27982273 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | + | chr1_1:27982614-27982633 | Msa0016870:intron | 15.0% |
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:27982253-27982272 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:27982254-27982273 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | + | chr1_1:27982614-27982633 | Msa0016870:intron | 15.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:27982214-27982233 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | - | chr1_1:27982255-27982274 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:27982308-27982327 | Msa0016870:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:27982359-27982378 | Msa0016870:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:27982452-27982471 | Msa0016870:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:27982453-27982472 | Msa0016870:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:27982594-27982613 | None:intergenic | 20.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:27982214-27982233 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | - | chr1_1:27982255-27982274 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:27982308-27982327 | Msa0016870:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:27982359-27982378 | Msa0016870:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:27982452-27982471 | Msa0016870:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:27982453-27982472 | Msa0016870:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:27982594-27982613 | None:intergenic | 20.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:27982020-27982039 | Msa0016870:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:27982207-27982226 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:27982319-27982338 | Msa0016870:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:27982399-27982418 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:27982400-27982419 | None:intergenic | 25.0% |
| ! | ATTCATTCAAAACCTAATAC+CGG | - | chr1_1:27982444-27982463 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:27982454-27982473 | Msa0016870:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:27982502-27982521 | None:intergenic | 25.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:27982020-27982039 | Msa0016870:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:27982207-27982226 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:27982319-27982338 | Msa0016870:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:27982399-27982418 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:27982400-27982419 | None:intergenic | 25.0% |
| ! | ATTCATTCAAAACCTAATAC+CGG | - | chr1_1:27982444-27982463 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:27982454-27982473 | Msa0016870:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:27982502-27982521 | None:intergenic | 25.0% |
| !! | GTCTGATAACTGATTTTGTT+GGG | - | chr1_1:27982140-27982159 | None:intergenic | 30.0% |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:27982407-27982426 | None:intergenic | 30.0% | |
| TTCATTCAAAACCTAATACC+GGG | - | chr1_1:27982443-27982462 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:27982496-27982515 | Msa0016870:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:27982643-27982662 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:27982642-27982661 | Msa0016870:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:27982674-27982693 | Msa0016870:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:27982675-27982694 | Msa0016870:CDS | 30.0% | |
| !! | GTCTGATAACTGATTTTGTT+GGG | - | chr1_1:27982140-27982159 | None:intergenic | 30.0% |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:27982407-27982426 | None:intergenic | 30.0% | |
| TTCATTCAAAACCTAATACC+GGG | - | chr1_1:27982443-27982462 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:27982496-27982515 | Msa0016870:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:27982643-27982662 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:27982642-27982661 | Msa0016870:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:27982674-27982693 | Msa0016870:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:27982675-27982694 | Msa0016870:CDS | 30.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:27982028-27982047 | Msa0016870:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:27982055-27982074 | None:intergenic | 35.0% |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:27982113-27982132 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:27982114-27982133 | None:intergenic | 35.0% | |
| ! | TGATTTTGTTGGGATGTCTT+CGG | - | chr1_1:27982130-27982149 | None:intergenic | 35.0% |
| !! | GGTCTGATAACTGATTTTGT+TGG | - | chr1_1:27982141-27982160 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:27982460-27982479 | Msa0016870:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:27982581-27982600 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:27982645-27982664 | Msa0016870:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:27982763-27982782 | Msa0016870:CDS | 35.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:27982028-27982047 | Msa0016870:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:27982055-27982074 | None:intergenic | 35.0% |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:27982113-27982132 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:27982114-27982133 | None:intergenic | 35.0% | |
| ! | TGATTTTGTTGGGATGTCTT+CGG | - | chr1_1:27982130-27982149 | None:intergenic | 35.0% |
| !! | GGTCTGATAACTGATTTTGT+TGG | - | chr1_1:27982141-27982160 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:27982460-27982479 | Msa0016870:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:27982581-27982600 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:27982645-27982664 | Msa0016870:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:27982763-27982782 | Msa0016870:CDS | 35.0% | |
| CCACAAGCGTTACATAGTAT+TGG | - | chr1_1:27982067-27982086 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | + | chr1_1:27982064-27982083 | Msa0016870:CDS | 40.0% | |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_1:27982085-27982104 | Msa0016870:CDS | 40.0% | |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_1:27982153-27982172 | Msa0016870:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_1:27982162-27982181 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:27982194-27982213 | None:intergenic | 40.0% |
| AGCATTCATTTGAGTAGACC+CGG | + | chr1_1:27982422-27982441 | Msa0016870:intron | 40.0% | |
| ATTTGAGTAGACCCGGTATT+AGG | + | chr1_1:27982429-27982448 | Msa0016870:intron | 40.0% | |
| CCACAAGCGTTACATAGTAT+TGG | - | chr1_1:27982067-27982086 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | + | chr1_1:27982064-27982083 | Msa0016870:CDS | 40.0% | |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_1:27982085-27982104 | Msa0016870:CDS | 40.0% | |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_1:27982153-27982172 | Msa0016870:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_1:27982162-27982181 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:27982194-27982213 | None:intergenic | 40.0% |
| AGCATTCATTTGAGTAGACC+CGG | + | chr1_1:27982422-27982441 | Msa0016870:intron | 40.0% | |
| ATTTGAGTAGACCCGGTATT+AGG | + | chr1_1:27982429-27982448 | Msa0016870:intron | 40.0% | |
| ! | CGCTTGTGGACTACATTTCA+AGG | + | chr1_1:27982078-27982097 | Msa0016870:CDS | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:27982193-27982212 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:27982193-27982212 | Msa0016870:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:27982772-27982791 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:27982769-27982788 | Msa0016870:CDS | 45.0% | |
| ! | CGCTTGTGGACTACATTTCA+AGG | + | chr1_1:27982078-27982097 | Msa0016870:CDS | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:27982193-27982212 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:27982193-27982212 | Msa0016870:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:27982772-27982791 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:27982769-27982788 | Msa0016870:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 27982016 | 27982837 | 27982016 | ID=Msa0016870;Name=Msa0016870 |
| chr1_1 | mRNA | 27982016 | 27982837 | 27982016 | ID=Msa0016870-mRNA-1;Parent=Msa0016870;Name=Msa0016870-mRNA-1;_AED=0.45;_eAED=0.45;_QI=0|0|0|1|1|1|2|0|134 |
| chr1_1 | exon | 27982016 | 27982214 | 27982016 | ID=Msa0016870-mRNA-1:exon:9418;Parent=Msa0016870-mRNA-1 |
| chr1_1 | exon | 27982632 | 27982837 | 27982632 | ID=Msa0016870-mRNA-1:exon:9419;Parent=Msa0016870-mRNA-1 |
| chr1_1 | CDS | 27982016 | 27982214 | 27982016 | ID=Msa0016870-mRNA-1:cds;Parent=Msa0016870-mRNA-1 |
| chr1_1 | CDS | 27982632 | 27982837 | 27982632 | ID=Msa0016870-mRNA-1:cds;Parent=Msa0016870-mRNA-1 |
| Gene Sequence |
| Protein sequence |
