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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016890 | G7I6L4 | 87.313 | 134 | 17 | 0 | 1 | 134 | 1 | 134 | 3.38e-74 | 226 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0016890 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016890 | MtrunA17_Chr5g0399781 | 51.852 | 54 | 25 | 1 | 3 | 56 | 12 | 64 | 1.43e-11 | 59.7 |
| Msa0016890 | 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:+27997908 | Msa0016890:CDS |
| CGCTTGTGGACTACATTTCA+AGG | 0.405648 | 1_1:+27997313 | Msa0016890:CDS |
| TGGAGATTGGTTTGAAAGCT+CGG | 0.447768 | 1_1:-27997426 | None:intergenic |
| CCACAAGCGTTACATAGTAT+TGG | 0.448818 | 1_1:-27997299 | None:intergenic |
| GAAACTAAACTTTGGCGTAA+AGG | 0.456777 | 1_1:+27997263 | Msa0016890:CDS |
| ATCAGACCTTGACGTTGAAA+AGG | 0.465983 | 1_1:+27997388 | Msa0016890:CDS |
| GGACTACATTTCAAGGCTAA+AGG | 0.474721 | 1_1:+27997320 | Msa0016890:CDS |
| TCTTCGGAAGATAGTTATCA+AGG | 0.478433 | 1_1:-27997346 | None:intergenic |
| TGTATACCAAGCAATGAGAT+AGG | 0.478624 | 1_1:+27997997 | Msa0016890:CDS |
| CATAGTATTGGCTTCTCATA+CGG | 0.490978 | 1_1:-27997287 | None:intergenic |
| ATCGATTGTGAAGAATCAAA+TGG | 0.491491 | 1_1:+27997876 | Msa0016890:CDS |
| GGAGATTGGTTTGAAAGCTC+GGG | 0.493147 | 1_1:-27997425 | None:intergenic |
| CCAAGCAATGAGATAGGCAT+TGG | 0.496933 | 1_1:+27998003 | Msa0016890:CDS |
| ATTTGATTCTTCACAATCGA+TGG | 0.523804 | 1_1:-27997874 | None:intergenic |
| ACAAAAGCTTCAAAGTCTAT+GGG | 0.556384 | 1_1:+27997909 | Msa0016890:CDS |
| CCAATGCCTATCTCATTGCT+TGG | 0.566560 | 1_1:-27998003 | None:intergenic |
| GAGCTTTCAAACCAATCTCC+AGG | 0.568278 | 1_1:+27997428 | Msa0016890:CDS |
| CCAATACTATGTAACGCTTG+TGG | 0.608782 | 1_1:+27997299 | Msa0016890:CDS |
| CTTCGGAAGATAGTTATCAA+GGG | 0.629882 | 1_1:-27997345 | None:intergenic |
| GATTGTGAAGAATCAAATGG+AGG | 0.680011 | 1_1:+27997879 | Msa0016890:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:27997488-27997507 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:27997489-27997508 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | + | chr1_1:27997848-27997867 | Msa0016890:intron | 15.0% |
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:27997488-27997507 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:27997489-27997508 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | + | chr1_1:27997848-27997867 | Msa0016890:intron | 15.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:27997449-27997468 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | - | chr1_1:27997490-27997509 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:27997543-27997562 | Msa0016890:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:27997594-27997613 | Msa0016890:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:27997687-27997706 | Msa0016890:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:27997688-27997707 | Msa0016890:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:27997828-27997847 | None:intergenic | 20.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:27997449-27997468 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | - | chr1_1:27997490-27997509 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:27997543-27997562 | Msa0016890:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:27997594-27997613 | Msa0016890:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:27997687-27997706 | Msa0016890:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:27997688-27997707 | Msa0016890:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:27997828-27997847 | None:intergenic | 20.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:27997255-27997274 | Msa0016890:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:27997442-27997461 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:27997554-27997573 | Msa0016890:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:27997634-27997653 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:27997635-27997654 | None:intergenic | 25.0% |
| ! | ATTCATTCAAAACCTAATAC+CGG | - | chr1_1:27997679-27997698 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:27997689-27997708 | Msa0016890:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:27997737-27997756 | None:intergenic | 25.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:27997255-27997274 | Msa0016890:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:27997442-27997461 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:27997554-27997573 | Msa0016890:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:27997634-27997653 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:27997635-27997654 | None:intergenic | 25.0% |
| ! | ATTCATTCAAAACCTAATAC+CGG | - | chr1_1:27997679-27997698 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:27997689-27997708 | Msa0016890:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:27997737-27997756 | None:intergenic | 25.0% |
| !! | GTCTGATAACTGATTTTGTT+GGG | - | chr1_1:27997375-27997394 | None:intergenic | 30.0% |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:27997642-27997661 | None:intergenic | 30.0% | |
| TTCATTCAAAACCTAATACC+GGG | - | chr1_1:27997678-27997697 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:27997731-27997750 | Msa0016890:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:27997877-27997896 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:27997876-27997895 | Msa0016890:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:27997908-27997927 | Msa0016890:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:27997909-27997928 | Msa0016890:CDS | 30.0% | |
| !! | GTCTGATAACTGATTTTGTT+GGG | - | chr1_1:27997375-27997394 | None:intergenic | 30.0% |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:27997642-27997661 | None:intergenic | 30.0% | |
| TTCATTCAAAACCTAATACC+GGG | - | chr1_1:27997678-27997697 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:27997731-27997750 | Msa0016890:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:27997877-27997896 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:27997876-27997895 | Msa0016890:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:27997908-27997927 | Msa0016890:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:27997909-27997928 | Msa0016890:CDS | 30.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:27997263-27997282 | Msa0016890:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:27997290-27997309 | None:intergenic | 35.0% |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:27997348-27997367 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:27997349-27997368 | None:intergenic | 35.0% | |
| ! | TGATTTTGTTGGGATGTCTT+CGG | - | chr1_1:27997365-27997384 | None:intergenic | 35.0% |
| !! | GGTCTGATAACTGATTTTGT+TGG | - | chr1_1:27997376-27997395 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:27997695-27997714 | Msa0016890:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:27997815-27997834 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:27997879-27997898 | Msa0016890:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:27997997-27998016 | Msa0016890:CDS | 35.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:27997263-27997282 | Msa0016890:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:27997290-27997309 | None:intergenic | 35.0% |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:27997348-27997367 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:27997349-27997368 | None:intergenic | 35.0% | |
| ! | TGATTTTGTTGGGATGTCTT+CGG | - | chr1_1:27997365-27997384 | None:intergenic | 35.0% |
| !! | GGTCTGATAACTGATTTTGT+TGG | - | chr1_1:27997376-27997395 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:27997695-27997714 | Msa0016890:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:27997815-27997834 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:27997879-27997898 | Msa0016890:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:27997997-27998016 | Msa0016890:CDS | 35.0% | |
| CCACAAGCGTTACATAGTAT+TGG | - | chr1_1:27997302-27997321 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | + | chr1_1:27997299-27997318 | Msa0016890:CDS | 40.0% | |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_1:27997320-27997339 | Msa0016890:CDS | 40.0% | |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_1:27997388-27997407 | Msa0016890:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_1:27997397-27997416 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:27997429-27997448 | None:intergenic | 40.0% |
| AGCATTCATTTGAGTAGACC+CGG | + | chr1_1:27997657-27997676 | Msa0016890:intron | 40.0% | |
| ATTTGAGTAGACCCGGTATT+AGG | + | chr1_1:27997664-27997683 | Msa0016890:intron | 40.0% | |
| CCACAAGCGTTACATAGTAT+TGG | - | chr1_1:27997302-27997321 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | + | chr1_1:27997299-27997318 | Msa0016890:CDS | 40.0% | |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_1:27997320-27997339 | Msa0016890:CDS | 40.0% | |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_1:27997388-27997407 | Msa0016890:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_1:27997397-27997416 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:27997429-27997448 | None:intergenic | 40.0% |
| AGCATTCATTTGAGTAGACC+CGG | + | chr1_1:27997657-27997676 | Msa0016890:intron | 40.0% | |
| ATTTGAGTAGACCCGGTATT+AGG | + | chr1_1:27997664-27997683 | Msa0016890:intron | 40.0% | |
| ! | CGCTTGTGGACTACATTTCA+AGG | + | chr1_1:27997313-27997332 | Msa0016890:CDS | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:27997428-27997447 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:27997428-27997447 | Msa0016890:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:27998006-27998025 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:27998003-27998022 | Msa0016890:CDS | 45.0% | |
| ! | CGCTTGTGGACTACATTTCA+AGG | + | chr1_1:27997313-27997332 | Msa0016890:CDS | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:27997428-27997447 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:27997428-27997447 | Msa0016890:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:27998006-27998025 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:27998003-27998022 | Msa0016890:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 27997251 | 27998071 | 27997251 | ID=Msa0016890;Name=Msa0016890 |
| chr1_1 | mRNA | 27997251 | 27998071 | 27997251 | ID=Msa0016890-mRNA-1;Parent=Msa0016890;Name=Msa0016890-mRNA-1;_AED=0.45;_eAED=0.45;_QI=0|0|0|1|1|1|2|0|134 |
| chr1_1 | exon | 27997251 | 27997449 | 27997251 | ID=Msa0016890-mRNA-1:exon:9422;Parent=Msa0016890-mRNA-1 |
| chr1_1 | exon | 27997866 | 27998071 | 27997866 | ID=Msa0016890-mRNA-1:exon:9423;Parent=Msa0016890-mRNA-1 |
| chr1_1 | CDS | 27997251 | 27997449 | 27997251 | ID=Msa0016890-mRNA-1:cds;Parent=Msa0016890-mRNA-1 |
| chr1_1 | CDS | 27997866 | 27998071 | 27997866 | ID=Msa0016890-mRNA-1:cds;Parent=Msa0016890-mRNA-1 |
| Gene Sequence |
| Protein sequence |
