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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016880 | 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 |
|---|---|---|
| Msa0016880 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016880 | MtrunA17_Chr5g0399781 | 51.852 | 54 | 25 | 1 | 3 | 56 | 12 | 64 | 1.43e-11 | 59.7 |
| Msa0016880 | 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:+27990297 | Msa0016880:CDS |
| CGCTTGTGGACTACATTTCA+AGG | 0.405648 | 1_1:+27989701 | Msa0016880:CDS |
| TGGAGATTGGTTTGAAAGCT+CGG | 0.447768 | 1_1:-27989814 | None:intergenic |
| CCACAAGCGTTACATAGTAT+TGG | 0.448818 | 1_1:-27989687 | None:intergenic |
| GAAACTAAACTTTGGCGTAA+AGG | 0.456777 | 1_1:+27989651 | Msa0016880:CDS |
| ATCAGACCTTGACGTTGAAA+AGG | 0.465983 | 1_1:+27989776 | Msa0016880:CDS |
| GGACTACATTTCAAGGCTAA+AGG | 0.474721 | 1_1:+27989708 | Msa0016880:CDS |
| TCTTCGGAAGATAGTTATCA+AGG | 0.478433 | 1_1:-27989734 | None:intergenic |
| TGTATACCAAGCAATGAGAT+AGG | 0.478624 | 1_1:+27990386 | Msa0016880:CDS |
| CATAGTATTGGCTTCTCATA+CGG | 0.490978 | 1_1:-27989675 | None:intergenic |
| ATCGATTGTGAAGAATCAAA+TGG | 0.491491 | 1_1:+27990265 | Msa0016880:CDS |
| GGAGATTGGTTTGAAAGCTC+GGG | 0.493147 | 1_1:-27989813 | None:intergenic |
| CCAAGCAATGAGATAGGCAT+TGG | 0.496933 | 1_1:+27990392 | Msa0016880:CDS |
| ATTTGATTCTTCACAATCGA+TGG | 0.523804 | 1_1:-27990263 | None:intergenic |
| ACAAAAGCTTCAAAGTCTAT+GGG | 0.556384 | 1_1:+27990298 | Msa0016880:CDS |
| CCAATGCCTATCTCATTGCT+TGG | 0.566560 | 1_1:-27990392 | None:intergenic |
| GAGCTTTCAAACCAATCTCC+AGG | 0.568278 | 1_1:+27989816 | Msa0016880:CDS |
| CCAATACTATGTAACGCTTG+TGG | 0.608782 | 1_1:+27989687 | Msa0016880:CDS |
| CTTCGGAAGATAGTTATCAA+GGG | 0.629882 | 1_1:-27989733 | None:intergenic |
| GATTGTGAAGAATCAAATGG+AGG | 0.680011 | 1_1:+27990268 | Msa0016880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:27989876-27989895 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:27989877-27989896 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | + | chr1_1:27990237-27990256 | Msa0016880:intron | 15.0% |
| !!! | TTTATATTTGTTGAAAAATG+GGG | - | chr1_1:27989876-27989895 | None:intergenic | 15.0% |
| !!! | CTTTATATTTGTTGAAAAAT+GGG | - | chr1_1:27989877-27989896 | None:intergenic | 15.0% |
| !!! | ACTTTTAATTTTTTGTAGAA+AGG | + | chr1_1:27990237-27990256 | Msa0016880:intron | 15.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:27989837-27989856 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | - | chr1_1:27989878-27989897 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:27989931-27989950 | Msa0016880:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:27989982-27990001 | Msa0016880:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:27990075-27990094 | Msa0016880:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:27990076-27990095 | Msa0016880:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:27990217-27990236 | None:intergenic | 20.0% |
| !!! | TTATTGCATTTTTTATTACC+TGG | - | chr1_1:27989837-27989856 | None:intergenic | 20.0% |
| !!! | GCTTTATATTTGTTGAAAAA+TGG | - | chr1_1:27989878-27989897 | None:intergenic | 20.0% |
| !!! | ATTGTAAGAATTTTCTTAAG+AGG | + | chr1_1:27989931-27989950 | Msa0016880:intron | 20.0% |
| !! | AACACTACTATTTATATATG+AGG | + | chr1_1:27989982-27990001 | Msa0016880:intron | 20.0% |
| !!! | TTTTGAATGAATTGTATTGA+TGG | + | chr1_1:27990075-27990094 | Msa0016880:intron | 20.0% |
| !!! | TTTGAATGAATTGTATTGAT+GGG | + | chr1_1:27990076-27990095 | Msa0016880:intron | 20.0% |
| !! | TTATATGTATACATCATACA+CGG | - | chr1_1:27990217-27990236 | None:intergenic | 20.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:27989643-27989662 | Msa0016880:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:27989830-27989849 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:27989942-27989961 | Msa0016880:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:27990022-27990041 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:27990023-27990042 | None:intergenic | 25.0% |
| ! | ATTCATTCAAAACCTAATAC+CGG | - | chr1_1:27990067-27990086 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:27990077-27990096 | Msa0016880:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:27990125-27990144 | None:intergenic | 25.0% |
| !! | TTTTGACAGAAACTAAACTT+TGG | + | chr1_1:27989643-27989662 | Msa0016880:CDS | 25.0% |
| !!! | ATTTTTTATTACCTGGAGAT+TGG | - | chr1_1:27989830-27989849 | None:intergenic | 25.0% |
| !! | TTTCTTAAGAGGTACAATTT+AGG | + | chr1_1:27989942-27989961 | Msa0016880:intron | 25.0% |
| ! | ATTGACAATGAAAGGAATTA+GGG | - | chr1_1:27990022-27990041 | None:intergenic | 25.0% |
| ! | TATTGACAATGAAAGGAATT+AGG | - | chr1_1:27990023-27990042 | None:intergenic | 25.0% |
| ! | ATTCATTCAAAACCTAATAC+CGG | - | chr1_1:27990067-27990086 | None:intergenic | 25.0% |
| !! | TTGAATGAATTGTATTGATG+GGG | + | chr1_1:27990077-27990096 | Msa0016880:intron | 25.0% |
| ! | TATCCATAAATGTATGAATG+TGG | - | chr1_1:27990125-27990144 | None:intergenic | 25.0% |
| !! | GTCTGATAACTGATTTTGTT+GGG | - | chr1_1:27989763-27989782 | None:intergenic | 30.0% |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:27990030-27990049 | None:intergenic | 30.0% | |
| TTCATTCAAAACCTAATACC+GGG | - | chr1_1:27990066-27990085 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:27990119-27990138 | Msa0016880:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:27990266-27990285 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:27990265-27990284 | Msa0016880:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:27990297-27990316 | Msa0016880:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:27990298-27990317 | Msa0016880:CDS | 30.0% | |
| !! | GTCTGATAACTGATTTTGTT+GGG | - | chr1_1:27989763-27989782 | None:intergenic | 30.0% |
| ATGCTCTTATTGACAATGAA+AGG | - | chr1_1:27990030-27990049 | None:intergenic | 30.0% | |
| TTCATTCAAAACCTAATACC+GGG | - | chr1_1:27990066-27990085 | None:intergenic | 30.0% | |
| ACTCCACATTCATACATTTA+TGG | + | chr1_1:27990119-27990138 | Msa0016880:intron | 30.0% | |
| ATTTGATTCTTCACAATCGA+TGG | - | chr1_1:27990266-27990285 | None:intergenic | 30.0% | |
| ATCGATTGTGAAGAATCAAA+TGG | + | chr1_1:27990265-27990284 | Msa0016880:CDS | 30.0% | |
| AACAAAAGCTTCAAAGTCTA+TGG | + | chr1_1:27990297-27990316 | Msa0016880:CDS | 30.0% | |
| ACAAAAGCTTCAAAGTCTAT+GGG | + | chr1_1:27990298-27990317 | Msa0016880:CDS | 30.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:27989651-27989670 | Msa0016880:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:27989678-27989697 | None:intergenic | 35.0% |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:27989736-27989755 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:27989737-27989756 | None:intergenic | 35.0% | |
| ! | TGATTTTGTTGGGATGTCTT+CGG | - | chr1_1:27989753-27989772 | None:intergenic | 35.0% |
| !! | GGTCTGATAACTGATTTTGT+TGG | - | chr1_1:27989764-27989783 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:27990083-27990102 | Msa0016880:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:27990204-27990223 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:27990268-27990287 | Msa0016880:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:27990386-27990405 | Msa0016880:CDS | 35.0% | |
| GAAACTAAACTTTGGCGTAA+AGG | + | chr1_1:27989651-27989670 | Msa0016880:CDS | 35.0% | |
| !! | CATAGTATTGGCTTCTCATA+CGG | - | chr1_1:27989678-27989697 | None:intergenic | 35.0% |
| CTTCGGAAGATAGTTATCAA+GGG | - | chr1_1:27989736-27989755 | None:intergenic | 35.0% | |
| TCTTCGGAAGATAGTTATCA+AGG | - | chr1_1:27989737-27989756 | None:intergenic | 35.0% | |
| ! | TGATTTTGTTGGGATGTCTT+CGG | - | chr1_1:27989753-27989772 | None:intergenic | 35.0% |
| !! | GGTCTGATAACTGATTTTGT+TGG | - | chr1_1:27989764-27989783 | None:intergenic | 35.0% |
| ! | GAATTGTATTGATGGGGATT+AGG | + | chr1_1:27990083-27990102 | Msa0016880:intron | 35.0% |
| TCATACACGGTACATATCAA+TGG | - | chr1_1:27990204-27990223 | None:intergenic | 35.0% | |
| GATTGTGAAGAATCAAATGG+AGG | + | chr1_1:27990268-27990287 | Msa0016880:CDS | 35.0% | |
| TGTATACCAAGCAATGAGAT+AGG | + | chr1_1:27990386-27990405 | Msa0016880:CDS | 35.0% | |
| CCACAAGCGTTACATAGTAT+TGG | - | chr1_1:27989690-27989709 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | + | chr1_1:27989687-27989706 | Msa0016880:CDS | 40.0% | |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_1:27989708-27989727 | Msa0016880:CDS | 40.0% | |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_1:27989776-27989795 | Msa0016880:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_1:27989785-27989804 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:27989817-27989836 | None:intergenic | 40.0% |
| AGCATTCATTTGAGTAGACC+CGG | + | chr1_1:27990045-27990064 | Msa0016880:intron | 40.0% | |
| ATTTGAGTAGACCCGGTATT+AGG | + | chr1_1:27990052-27990071 | Msa0016880:intron | 40.0% | |
| CCACAAGCGTTACATAGTAT+TGG | - | chr1_1:27989690-27989709 | None:intergenic | 40.0% | |
| CCAATACTATGTAACGCTTG+TGG | + | chr1_1:27989687-27989706 | Msa0016880:CDS | 40.0% | |
| GGACTACATTTCAAGGCTAA+AGG | + | chr1_1:27989708-27989727 | Msa0016880:CDS | 40.0% | |
| ATCAGACCTTGACGTTGAAA+AGG | + | chr1_1:27989776-27989795 | Msa0016880:CDS | 40.0% | |
| ! | CAGATTCCTTTTCAACGTCA+AGG | - | chr1_1:27989785-27989804 | None:intergenic | 40.0% |
| !! | TGGAGATTGGTTTGAAAGCT+CGG | - | chr1_1:27989817-27989836 | None:intergenic | 40.0% |
| AGCATTCATTTGAGTAGACC+CGG | + | chr1_1:27990045-27990064 | Msa0016880:intron | 40.0% | |
| ATTTGAGTAGACCCGGTATT+AGG | + | chr1_1:27990052-27990071 | Msa0016880:intron | 40.0% | |
| ! | CGCTTGTGGACTACATTTCA+AGG | + | chr1_1:27989701-27989720 | Msa0016880:CDS | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:27989816-27989835 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:27989816-27989835 | Msa0016880:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:27990395-27990414 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:27990392-27990411 | Msa0016880:CDS | 45.0% | |
| ! | CGCTTGTGGACTACATTTCA+AGG | + | chr1_1:27989701-27989720 | Msa0016880:CDS | 45.0% |
| !! | GGAGATTGGTTTGAAAGCTC+GGG | - | chr1_1:27989816-27989835 | None:intergenic | 45.0% |
| GAGCTTTCAAACCAATCTCC+AGG | + | chr1_1:27989816-27989835 | Msa0016880:CDS | 45.0% | |
| CCAATGCCTATCTCATTGCT+TGG | - | chr1_1:27990395-27990414 | None:intergenic | 45.0% | |
| CCAAGCAATGAGATAGGCAT+TGG | + | chr1_1:27990392-27990411 | Msa0016880:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 27989639 | 27990460 | 27989639 | ID=Msa0016880;Name=Msa0016880 |
| chr1_1 | mRNA | 27989639 | 27990460 | 27989639 | ID=Msa0016880-mRNA-1;Parent=Msa0016880;Name=Msa0016880-mRNA-1;_AED=0.45;_eAED=0.45;_QI=0|0|0|1|1|1|2|0|134 |
| chr1_1 | exon | 27989639 | 27989837 | 27989639 | ID=Msa0016880-mRNA-1:exon:9420;Parent=Msa0016880-mRNA-1 |
| chr1_1 | exon | 27990255 | 27990460 | 27990255 | ID=Msa0016880-mRNA-1:exon:9421;Parent=Msa0016880-mRNA-1 |
| chr1_1 | CDS | 27989639 | 27989837 | 27989639 | ID=Msa0016880-mRNA-1:cds;Parent=Msa0016880-mRNA-1 |
| chr1_1 | CDS | 27990255 | 27990460 | 27990255 | ID=Msa0016880-mRNA-1:cds;Parent=Msa0016880-mRNA-1 |
| Gene Sequence |
| Protein sequence |
