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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016850 | AES60398.2 | 87.313 | 134 | 17 | 0 | 1 | 134 | 1 | 134 | 1.12e-73 | 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 |
|---|---|---|
| Msa0016850 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016850 | MtrunA17_Chr5g0399781 | 51.852 | 54 | 25 | 1 | 3 | 56 | 12 | 64 | 1.43e-11 | 59.7 |
| Msa0016850 | 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 22 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:+27973579 | Msa0016850:CDS |
| CGCTTGTGGGCTACATTTCA+AGG | 0.378248 | 1_1:+27972984 | Msa0016850:CDS |
| CAATACTATGTAACGCTTGT+GGG | 0.416623 | 1_1:+27972971 | Msa0016850:CDS |
| CCACAAGCGTTACATAGTAT+TGG | 0.447482 | 1_1:-27972970 | None:intergenic |
| TGGAGATTGGTTTGAAAGCT+CGG | 0.447768 | 1_1:-27973097 | None:intergenic |
| GAAACTAAACTTTGGCGTAA+AGG | 0.456777 | 1_1:+27972934 | Msa0016850:CDS |
| ATCAGACCTTGACGTGGAAA+AGG | 0.466063 | 1_1:+27973059 | Msa0016850:CDS |
| TCTTCGGAAGATAGTTATCA+AGG | 0.478433 | 1_1:-27973017 | None:intergenic |
| TGTATACCAAGCAATGAGAT+AGG | 0.478624 | 1_1:+27973668 | Msa0016850:CDS |
| CATAGTATTGGCTTCTCATA+CGG | 0.490978 | 1_1:-27972958 | None:intergenic |
| ATCGATTGTGAAGAATCAAA+TGG | 0.491491 | 1_1:+27973547 | Msa0016850:CDS |
| GGGCTACATTTCAAGGCTAA+AGG | 0.492067 | 1_1:+27972991 | Msa0016850:CDS |
| GGAGATTGGTTTGAAAGCTC+GGG | 0.493147 | 1_1:-27973096 | None:intergenic |
| CCAAGCAATGAGATAGGCAT+TGG | 0.496933 | 1_1:+27973674 | Msa0016850:CDS |
| ATTTGATTCTTCACAATCGA+TGG | 0.523804 | 1_1:-27973545 | None:intergenic |
| CCAATACTATGTAACGCTTG+TGG | 0.549603 | 1_1:+27972970 | Msa0016850:CDS |
| ACAAAAGCTTCAAAGTCTAT+GGG | 0.556384 | 1_1:+27973580 | Msa0016850:CDS |
| CCAATGCCTATCTCATTGCT+TGG | 0.566560 | 1_1:-27973674 | None:intergenic |
| GAGCTTTCAAACCAATCTCC+AGG | 0.568278 | 1_1:+27973099 | Msa0016850:CDS |
| CTTCGGAAGATAGTTATCAA+GGG | 0.629882 | 1_1:-27973016 | None:intergenic |
| GATTGTGAAGAATCAAATGG+AGG | 0.680011 | 1_1:+27973550 | Msa0016850:CDS |
| TCAGTTATCAGACCTTGACG+TGG | 0.685195 | 1_1:+27973053 | Msa0016850:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:27973159-27973178 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:27973160-27973179 | None:intergenic | 15.0% |
| !!! | ACTTTATATTTGTTGAAAAA+TGG | - | chr1_1:27973161-27973180 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | + | chr1_1:27973519-27973538 | Msa0016850:intron | 15.0% |
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:27973159-27973178 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:27973160-27973179 | None:intergenic | 15.0% |
| !!! | ACTTTATATTTGTTGAAAAA+TGG | - | chr1_1:27973161-27973180 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | + | chr1_1:27973519-27973538 | Msa0016850:intron | 15.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:27973120-27973139 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:27973214-27973233 | Msa0016850:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:27973265-27973284 | Msa0016850:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:27973358-27973377 | Msa0016850:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:27973359-27973378 | Msa0016850:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:27973499-27973518 | None:intergenic | 20.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:27973120-27973139 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:27973214-27973233 | Msa0016850:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:27973265-27973284 | Msa0016850:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:27973358-27973377 | Msa0016850:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:27973359-27973378 | Msa0016850:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:27973499-27973518 | None:intergenic | 20.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:27972926-27972945 | Msa0016850:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:27973113-27973132 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:27973225-27973244 | Msa0016850:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:27973305-27973324 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:27973306-27973325 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:27973360-27973379 | Msa0016850:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:27973408-27973427 | None:intergenic | 25.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:27972926-27972945 | Msa0016850:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:27973113-27973132 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:27973225-27973244 | Msa0016850:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:27973305-27973324 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:27973306-27973325 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:27973360-27973379 | Msa0016850:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:27973408-27973427 | None:intergenic | 25.0% |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:27973313-27973332 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:27973402-27973421 | Msa0016850:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:27973548-27973567 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:27973547-27973566 | Msa0016850:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:27973579-27973598 | Msa0016850:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:27973580-27973599 | Msa0016850:CDS | 30.0% | |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:27973313-27973332 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:27973402-27973421 | Msa0016850:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:27973548-27973567 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:27973547-27973566 | Msa0016850:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:27973579-27973598 | Msa0016850:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:27973580-27973599 | Msa0016850:CDS | 30.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:27972934-27972953 | Msa0016850:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:27972961-27972980 | None:intergenic | 35.0% |
| CAATACTATGTAACGCTTGT+GGG | + | chr1_1:27972971-27972990 | Msa0016850:CDS | 35.0% | |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:27973019-27973038 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:27973020-27973039 | None:intergenic | 35.0% | |
| !! | GTCTGATAACTGATTTTGCT+GGG | - | chr1_1:27973046-27973065 | None:intergenic | 35.0% |
| AGCATTCATTTGAGTAGACA+CGG | + | chr1_1:27973328-27973347 | Msa0016850:intron | 35.0% | |
| ATTTGAGTAGACACGGTATT+AGG | + | chr1_1:27973335-27973354 | Msa0016850:intron | 35.0% | |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:27973366-27973385 | Msa0016850:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:27973486-27973505 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:27973550-27973569 | Msa0016850:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:27973668-27973687 | Msa0016850:CDS | 35.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:27972934-27972953 | Msa0016850:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:27972961-27972980 | None:intergenic | 35.0% |
| CAATACTATGTAACGCTTGT+GGG | + | chr1_1:27972971-27972990 | Msa0016850:CDS | 35.0% | |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:27973019-27973038 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:27973020-27973039 | None:intergenic | 35.0% | |
| !! | GTCTGATAACTGATTTTGCT+GGG | - | chr1_1:27973046-27973065 | None:intergenic | 35.0% |
| AGCATTCATTTGAGTAGACA+CGG | + | chr1_1:27973328-27973347 | Msa0016850:intron | 35.0% | |
| ATTTGAGTAGACACGGTATT+AGG | + | chr1_1:27973335-27973354 | Msa0016850:intron | 35.0% | |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:27973366-27973385 | Msa0016850:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:27973486-27973505 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:27973550-27973569 | Msa0016850:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:27973668-27973687 | Msa0016850:CDS | 35.0% | |
| CCACAAGCGTTACATAGTAT+TGG | - | chr1_1:27972973-27972992 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | + | chr1_1:27972970-27972989 | Msa0016850:CDS | 40.0% | |
| ! | TGATTTTGCTGGGATGTCTT+CGG | - | chr1_1:27973036-27973055 | None:intergenic | 40.0% |
| !! | GGTCTGATAACTGATTTTGC+TGG | - | chr1_1:27973047-27973066 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:27973100-27973119 | None:intergenic | 40.0% |
| CCACAAGCGTTACATAGTAT+TGG | - | chr1_1:27972973-27972992 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | + | chr1_1:27972970-27972989 | Msa0016850:CDS | 40.0% | |
| ! | TGATTTTGCTGGGATGTCTT+CGG | - | chr1_1:27973036-27973055 | None:intergenic | 40.0% |
| !! | GGTCTGATAACTGATTTTGC+TGG | - | chr1_1:27973047-27973066 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:27973100-27973119 | None:intergenic | 40.0% |
| GGGCTACATTTCAAGGCTAA+AGG | + | chr1_1:27972991-27973010 | Msa0016850:CDS | 45.0% | |
| TCAGTTATCAGACCTTGACG+TGG | + | chr1_1:27973053-27973072 | Msa0016850:CDS | 45.0% | |
| ATCAGACCTTGACGTGGAAA+AGG | + | chr1_1:27973059-27973078 | Msa0016850:CDS | 45.0% | |
| ! | CAGATTCCTTTTCCACGTCA+AGG | - | chr1_1:27973068-27973087 | None:intergenic | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:27973099-27973118 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:27973099-27973118 | Msa0016850:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:27973677-27973696 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:27973674-27973693 | Msa0016850:CDS | 45.0% | |
| GGGCTACATTTCAAGGCTAA+AGG | + | chr1_1:27972991-27973010 | Msa0016850:CDS | 45.0% | |
| TCAGTTATCAGACCTTGACG+TGG | + | chr1_1:27973053-27973072 | Msa0016850:CDS | 45.0% | |
| ATCAGACCTTGACGTGGAAA+AGG | + | chr1_1:27973059-27973078 | Msa0016850:CDS | 45.0% | |
| ! | CAGATTCCTTTTCCACGTCA+AGG | - | chr1_1:27973068-27973087 | None:intergenic | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:27973099-27973118 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:27973099-27973118 | Msa0016850:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:27973677-27973696 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:27973674-27973693 | Msa0016850:CDS | 45.0% | |
| ! | CGCTTGTGGGCTACATTTCA+AGG | + | chr1_1:27972984-27973003 | Msa0016850:CDS | 50.0% |
| ! | CGCTTGTGGGCTACATTTCA+AGG | + | chr1_1:27972984-27973003 | Msa0016850:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 27972922 | 27973742 | 27972922 | ID=Msa0016850;Name=Msa0016850 |
| chr1_1 | mRNA | 27972922 | 27973742 | 27972922 | ID=Msa0016850-mRNA-1;Parent=Msa0016850;Name=Msa0016850-mRNA-1;_AED=0.45;_eAED=0.45;_QI=0|0|0|1|1|1|2|0|134 |
| chr1_1 | exon | 27972922 | 27973120 | 27972922 | ID=Msa0016850-mRNA-1:exon:9416;Parent=Msa0016850-mRNA-1 |
| chr1_1 | exon | 27973537 | 27973742 | 27973537 | ID=Msa0016850-mRNA-1:exon:9417;Parent=Msa0016850-mRNA-1 |
| chr1_1 | CDS | 27972922 | 27973120 | 27972922 | ID=Msa0016850-mRNA-1:cds;Parent=Msa0016850-mRNA-1 |
| chr1_1 | CDS | 27973537 | 27973742 | 27973537 | ID=Msa0016850-mRNA-1:cds;Parent=Msa0016850-mRNA-1 |
| Gene Sequence |
| Protein sequence |
