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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1091840 | RHN43971.1 | 81.522 | 92 | 8 | 2 | 55 | 146 | 12 | 94 | 1.29e-32 | 124 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1091840 | A0A396GUT9 | 81.522 | 92 | 8 | 2 | 55 | 146 | 12 | 94 | 6.16e-33 | 124 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1091840 | TR | SNF2 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1091840 | MtrunA17_Chr7g0214291 | 81.522 | 92 | 8 | 2 | 55 | 146 | 12 | 94 | 1.19e-36 | 124 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 32 sgRNAs with CRISPR-Local
Find 86 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTCCATCACCATTTAATTT+TGG | 0.165025 | 7_3:+7381608 | None:intergenic |
| TTAAACTCTCCAAAATTAAA+TGG | 0.244854 | 7_3:-7381617 | Msa1091840:CDS |
| ATGATACTCTAAGCCTTAAT+TGG | 0.261799 | 7_3:-7382032 | Msa1091840:CDS |
| AGTGAAATATCATGATTTAA+AGG | 0.299376 | 7_3:-7381727 | Msa1091840:CDS |
| CAACAACTCAGGAGAATTAA+TGG | 0.337925 | 7_3:-7381831 | Msa1091840:CDS |
| AAATACCAATCAGCCAATTA+AGG | 0.350978 | 7_3:+7382019 | None:intergenic |
| CTAAGCCTTAATTGGCTGAT+TGG | 0.351787 | 7_3:-7382024 | Msa1091840:intron |
| GAAGGATTCCTTTCCATCCT+AGG | 0.377685 | 7_3:+7382337 | None:intergenic |
| AAATACCTTCGATTGATAGA+AGG | 0.404032 | 7_3:+7382319 | None:intergenic |
| TATTTCACTGTATTTAGCTC+TGG | 0.423345 | 7_3:+7381741 | None:intergenic |
| CCAATGGTCCATCATCAACT+TGG | 0.427516 | 7_3:+7381788 | None:intergenic |
| TTTAAAGGAAGCTGATTTGA+AGG | 0.442829 | 7_3:-7381712 | Msa1091840:CDS |
| AATAGGCAGTAACGTGGCGC+TGG | 0.447524 | 7_3:-7382061 | Msa1091840:intron |
| TTGTTATTGTCGTTGCTCCT+AGG | 0.483705 | 7_3:-7382354 | Msa1091840:CDS |
| TGTTGCAAACGATGTTGAAA+AGG | 0.485389 | 7_3:-7381643 | Msa1091840:CDS |
| TCTCCAAAATTAAATGGTGA+TGG | 0.515919 | 7_3:-7381611 | None:intergenic |
| TATTGTCGTTGCTCCTAGGA+TGG | 0.520917 | 7_3:-7382350 | Msa1091840:CDS |
| GCTGATGATGATGGTGGGAG+TGG | 0.523385 | 7_3:-7382382 | Msa1091840:CDS |
| TCTCACGCCCAAGTTGATGA+TGG | 0.528994 | 7_3:-7381796 | Msa1091840:CDS |
| CCAAGTTGATGATGGACCAT+TGG | 0.554041 | 7_3:-7381788 | Msa1091840:CDS |
| TATTAATCTTATCAATCCAA+TGG | 0.563475 | 7_3:+7381772 | None:intergenic |
| ATAGGCAGTAACGTGGCGCT+GGG | 0.577207 | 7_3:-7382060 | Msa1091840:intron |
| CAATGGTCCATCATCAACTT+GGG | 0.577723 | 7_3:+7381789 | None:intergenic |
| AAAGTTGCTGCTGATGATGA+TGG | 0.585831 | 7_3:-7382391 | Msa1091840:CDS |
| TATCATACTTGCAACAACTC+AGG | 0.593179 | 7_3:-7381842 | Msa1091840:CDS |
| TCGTTGCTCCTAGGATGGAA+AGG | 0.616152 | 7_3:-7382345 | Msa1091840:CDS |
| GGAATCCTTCTATCAATCGA+AGG | 0.618500 | 7_3:-7382324 | Msa1091840:intron |
| TTGTTCAATAGGCAGTAACG+TGG | 0.663232 | 7_3:-7382067 | Msa1091840:intron |
| TTGCTGCTGATGATGATGGT+GGG | 0.685686 | 7_3:-7382387 | Msa1091840:CDS |
| TTGGGCGTGAGAATCAAATG+AGG | 0.687571 | 7_3:+7381807 | None:intergenic |
| GTTGCTGCTGATGATGATGG+TGG | 0.691465 | 7_3:-7382388 | Msa1091840:CDS |
| ATGGTTGTTGATATTGAACG+TGG | 0.759107 | 7_3:-7382415 | Msa1091840:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTAAGTTTTCTTTTATTTC+AGG | - | chr7_3:7381798-7381817 | Msa1091840:CDS | 15.0% |
| !!! | AAGTTTTTTTAATTTTGTTC+AGG | - | chr7_3:7381878-7381897 | Msa1091840:intron | 15.0% |
| !!! | TTTAAGTTTTCTTTTATTTC+AGG | - | chr7_3:7381798-7381817 | Msa1091840:CDS | 15.0% |
| !!! | AAGTTTTTTTAATTTTGTTC+AGG | - | chr7_3:7381878-7381897 | Msa1091840:intron | 15.0% |
| !! | AGTTTCTTTAATCCATTAAA+TGG | - | chr7_3:7381906-7381925 | Msa1091840:intron | 20.0% |
| !!! | AAGGTATTAACTATTGTTAT+GGG | - | chr7_3:7382068-7382087 | Msa1091840:intron | 20.0% |
| !! | TATTAATCTTATCAATCCAA+TGG | + | chr7_3:7382260-7382279 | None:intergenic | 20.0% |
| !! | AGTGAAATATCATGATTTAA+AGG | - | chr7_3:7382302-7382321 | Msa1091840:intron | 20.0% |
| !! | TTAAACTCTCCAAAATTAAA+TGG | - | chr7_3:7382412-7382431 | Msa1091840:CDS | 20.0% |
| !! | AGTTTCTTTAATCCATTAAA+TGG | - | chr7_3:7381906-7381925 | Msa1091840:intron | 20.0% |
| !!! | AAGGTATTAACTATTGTTAT+GGG | - | chr7_3:7382068-7382087 | Msa1091840:intron | 20.0% |
| !! | TATTAATCTTATCAATCCAA+TGG | + | chr7_3:7382260-7382279 | None:intergenic | 20.0% |
| !! | AGTGAAATATCATGATTTAA+AGG | - | chr7_3:7382302-7382321 | Msa1091840:intron | 20.0% |
| !! | TTAAACTCTCCAAAATTAAA+TGG | - | chr7_3:7382412-7382431 | Msa1091840:CDS | 20.0% |
| ! | AGATTAATGCAACCATTTAA+TGG | + | chr7_3:7381921-7381940 | None:intergenic | 25.0% |
| !!! | GAAGGTATTAACTATTGTTA+TGG | - | chr7_3:7382067-7382086 | Msa1091840:intron | 25.0% |
| ! | AGATTAATGCAACCATTTAA+TGG | + | chr7_3:7381921-7381940 | None:intergenic | 25.0% |
| !!! | GAAGGTATTAACTATTGTTA+TGG | - | chr7_3:7382067-7382086 | Msa1091840:intron | 25.0% |
| AAATACCTTCGATTGATAGA+AGG | + | chr7_3:7381713-7381732 | None:intergenic | 30.0% | |
| TTGCCCATTATTTGTTCAAT+AGG | - | chr7_3:7381951-7381970 | Msa1091840:intron | 30.0% | |
| CTGCCTATTGAACAAATAAT+GGG | + | chr7_3:7381957-7381976 | None:intergenic | 30.0% | |
| ACTGCCTATTGAACAAATAA+TGG | + | chr7_3:7381958-7381977 | None:intergenic | 30.0% | |
| ATGATACTCTAAGCCTTAAT+TGG | - | chr7_3:7381997-7382016 | Msa1091840:intron | 30.0% | |
| AAATACCAATCAGCCAATTA+AGG | + | chr7_3:7382013-7382032 | None:intergenic | 30.0% | |
| ! | ATTTTCGATCGATCTATGAA+TGG | - | chr7_3:7382029-7382048 | Msa1091840:CDS | 30.0% |
| ! | TATTTCACTGTATTTAGCTC+TGG | + | chr7_3:7382291-7382310 | None:intergenic | 30.0% |
| !! | TTTAAAGGAAGCTGATTTGA+AGG | - | chr7_3:7382317-7382336 | Msa1091840:intron | 30.0% |
| AAATACCTTCGATTGATAGA+AGG | + | chr7_3:7381713-7381732 | None:intergenic | 30.0% | |
| TTGCCCATTATTTGTTCAAT+AGG | - | chr7_3:7381951-7381970 | Msa1091840:intron | 30.0% | |
| CTGCCTATTGAACAAATAAT+GGG | + | chr7_3:7381957-7381976 | None:intergenic | 30.0% | |
| ACTGCCTATTGAACAAATAA+TGG | + | chr7_3:7381958-7381977 | None:intergenic | 30.0% | |
| ATGATACTCTAAGCCTTAAT+TGG | - | chr7_3:7381997-7382016 | Msa1091840:intron | 30.0% | |
| AAATACCAATCAGCCAATTA+AGG | + | chr7_3:7382013-7382032 | None:intergenic | 30.0% | |
| ! | ATTTTCGATCGATCTATGAA+TGG | - | chr7_3:7382029-7382048 | Msa1091840:CDS | 30.0% |
| ! | TATTTCACTGTATTTAGCTC+TGG | + | chr7_3:7382291-7382310 | None:intergenic | 30.0% |
| !! | TTTAAAGGAAGCTGATTTGA+AGG | - | chr7_3:7382317-7382336 | Msa1091840:intron | 30.0% |
| ATGGTTGTTGATATTGAACG+TGG | - | chr7_3:7381614-7381633 | Msa1091840:CDS | 35.0% | |
| !!! | CAATCGAAGGTATTTTACCA+AGG | - | chr7_3:7381718-7381737 | Msa1091840:CDS | 35.0% |
| TATCATACTTGCAACAACTC+AGG | - | chr7_3:7382187-7382206 | Msa1091840:intron | 35.0% | |
| CAACAACTCAGGAGAATTAA+TGG | - | chr7_3:7382198-7382217 | Msa1091840:intron | 35.0% | |
| TGTTGCAAACGATGTTGAAA+AGG | - | chr7_3:7382386-7382405 | Msa1091840:CDS | 35.0% | |
| ATGGTTGTTGATATTGAACG+TGG | - | chr7_3:7381614-7381633 | Msa1091840:CDS | 35.0% | |
| !!! | CAATCGAAGGTATTTTACCA+AGG | - | chr7_3:7381718-7381737 | Msa1091840:CDS | 35.0% |
| TATCATACTTGCAACAACTC+AGG | - | chr7_3:7382187-7382206 | Msa1091840:intron | 35.0% | |
| CAACAACTCAGGAGAATTAA+TGG | - | chr7_3:7382198-7382217 | Msa1091840:intron | 35.0% | |
| TGTTGCAAACGATGTTGAAA+AGG | - | chr7_3:7382386-7382405 | Msa1091840:CDS | 35.0% | |
| ! | AAAGTTGCTGCTGATGATGA+TGG | - | chr7_3:7381638-7381657 | Msa1091840:CDS | 40.0% |
| ! | TTGTTATTGTCGTTGCTCCT+AGG | - | chr7_3:7381675-7381694 | Msa1091840:CDS | 40.0% |
| GGAATCCTTCTATCAATCGA+AGG | - | chr7_3:7381705-7381724 | Msa1091840:CDS | 40.0% | |
| ! | TCAATCATGATTTGCGTCCT+TGG | + | chr7_3:7381738-7381757 | None:intergenic | 40.0% |
| TTGTTCAATAGGCAGTAACG+TGG | - | chr7_3:7381962-7381981 | Msa1091840:intron | 40.0% | |
| CTAAGCCTTAATTGGCTGAT+TGG | - | chr7_3:7382005-7382024 | Msa1091840:intron | 40.0% | |
| CAATGGTCCATCATCAACTT+GGG | + | chr7_3:7382243-7382262 | None:intergenic | 40.0% | |
| ! | AAAGTTGCTGCTGATGATGA+TGG | - | chr7_3:7381638-7381657 | Msa1091840:CDS | 40.0% |
| ! | TTGTTATTGTCGTTGCTCCT+AGG | - | chr7_3:7381675-7381694 | Msa1091840:CDS | 40.0% |
| GGAATCCTTCTATCAATCGA+AGG | - | chr7_3:7381705-7381724 | Msa1091840:CDS | 40.0% | |
| ! | TCAATCATGATTTGCGTCCT+TGG | + | chr7_3:7381738-7381757 | None:intergenic | 40.0% |
| TTGTTCAATAGGCAGTAACG+TGG | - | chr7_3:7381962-7381981 | Msa1091840:intron | 40.0% | |
| CTAAGCCTTAATTGGCTGAT+TGG | - | chr7_3:7382005-7382024 | Msa1091840:intron | 40.0% | |
| CAATGGTCCATCATCAACTT+GGG | + | chr7_3:7382243-7382262 | None:intergenic | 40.0% | |
| !! | TTGCTGCTGATGATGATGGT+GGG | - | chr7_3:7381642-7381661 | Msa1091840:CDS | 45.0% |
| TATTGTCGTTGCTCCTAGGA+TGG | - | chr7_3:7381679-7381698 | Msa1091840:CDS | 45.0% | |
| GAAGGATTCCTTTCCATCCT+AGG | + | chr7_3:7381695-7381714 | None:intergenic | 45.0% | |
| TGGAGTCTTAGCATACGAGA+AGG | - | chr7_3:7382049-7382068 | Msa1091840:CDS | 45.0% | |
| TTGGGCGTGAGAATCAAATG+AGG | + | chr7_3:7382225-7382244 | None:intergenic | 45.0% | |
| CCAATGGTCCATCATCAACT+TGG | + | chr7_3:7382244-7382263 | None:intergenic | 45.0% | |
| !! | CCAAGTTGATGATGGACCAT+TGG | - | chr7_3:7382241-7382260 | Msa1091840:intron | 45.0% |
| !! | TTGCTGCTGATGATGATGGT+GGG | - | chr7_3:7381642-7381661 | Msa1091840:CDS | 45.0% |
| TATTGTCGTTGCTCCTAGGA+TGG | - | chr7_3:7381679-7381698 | Msa1091840:CDS | 45.0% | |
| GAAGGATTCCTTTCCATCCT+AGG | + | chr7_3:7381695-7381714 | None:intergenic | 45.0% | |
| TGGAGTCTTAGCATACGAGA+AGG | - | chr7_3:7382049-7382068 | Msa1091840:CDS | 45.0% | |
| TTGGGCGTGAGAATCAAATG+AGG | + | chr7_3:7382225-7382244 | None:intergenic | 45.0% | |
| CCAATGGTCCATCATCAACT+TGG | + | chr7_3:7382244-7382263 | None:intergenic | 45.0% | |
| !! | CCAAGTTGATGATGGACCAT+TGG | - | chr7_3:7382241-7382260 | Msa1091840:intron | 45.0% |
| !! | GTTGCTGCTGATGATGATGG+TGG | - | chr7_3:7381641-7381660 | Msa1091840:CDS | 50.0% |
| TCGTTGCTCCTAGGATGGAA+AGG | - | chr7_3:7381684-7381703 | Msa1091840:CDS | 50.0% | |
| !! | TCTCACGCCCAAGTTGATGA+TGG | - | chr7_3:7382233-7382252 | Msa1091840:intron | 50.0% |
| !! | GTTGCTGCTGATGATGATGG+TGG | - | chr7_3:7381641-7381660 | Msa1091840:CDS | 50.0% |
| TCGTTGCTCCTAGGATGGAA+AGG | - | chr7_3:7381684-7381703 | Msa1091840:CDS | 50.0% | |
| !! | TCTCACGCCCAAGTTGATGA+TGG | - | chr7_3:7382233-7382252 | Msa1091840:intron | 50.0% |
| !! | GCTGATGATGATGGTGGGAG+TGG | - | chr7_3:7381647-7381666 | Msa1091840:CDS | 55.0% |
| AATAGGCAGTAACGTGGCGC+TGG | - | chr7_3:7381968-7381987 | Msa1091840:intron | 55.0% | |
| ATAGGCAGTAACGTGGCGCT+GGG | - | chr7_3:7381969-7381988 | Msa1091840:intron | 55.0% | |
| !! | GCTGATGATGATGGTGGGAG+TGG | - | chr7_3:7381647-7381666 | Msa1091840:CDS | 55.0% |
| AATAGGCAGTAACGTGGCGC+TGG | - | chr7_3:7381968-7381987 | Msa1091840:intron | 55.0% | |
| ATAGGCAGTAACGTGGCGCT+GGG | - | chr7_3:7381969-7381988 | Msa1091840:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 7381614 | 7382437 | 7381614 | ID=Msa1091840;Name=Msa1091840 |
| chr7_3 | mRNA | 7381614 | 7382437 | 7381614 | ID=Msa1091840-mRNA-1;Parent=Msa1091840;Name=Msa1091840-mRNA-1;_AED=0.40;_eAED=0.40;_QI=0|0|0|0.33|1|1|3|0|146 |
| chr7_3 | exon | 7382325 | 7382437 | 7382325 | ID=Msa1091840-mRNA-1:exon:2316;Parent=Msa1091840-mRNA-1 |
| chr7_3 | exon | 7382025 | 7382074 | 7382025 | ID=Msa1091840-mRNA-1:exon:2315;Parent=Msa1091840-mRNA-1 |
| chr7_3 | exon | 7381614 | 7381891 | 7381614 | ID=Msa1091840-mRNA-1:exon:2314;Parent=Msa1091840-mRNA-1 |
| chr7_3 | CDS | 7382325 | 7382437 | 7382325 | ID=Msa1091840-mRNA-1:cds;Parent=Msa1091840-mRNA-1 |
| chr7_3 | CDS | 7382025 | 7382074 | 7382025 | ID=Msa1091840-mRNA-1:cds;Parent=Msa1091840-mRNA-1 |
| chr7_3 | CDS | 7381614 | 7381891 | 7381614 | ID=Msa1091840-mRNA-1:cds;Parent=Msa1091840-mRNA-1 |
| Gene Sequence |
| Protein sequence |
