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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1135180 | RHN43971.1 | 78.641 | 103 | 11 | 3 | 61 | 161 | 1 | 94 | 5.10e-35 | 130 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1135180 | sp|F4JY24|CHR17_ARATH | 37.864 | 103 | 56 | 4 | 49 | 144 | 201 | 302 | 2.74e-13 | 69.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1135180 | A0A396GUT9 | 78.641 | 103 | 11 | 3 | 61 | 161 | 1 | 94 | 2.44e-35 | 130 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1135180 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1135180 | MtrunA17_Chr7g0214291 | 78.641 | 103 | 11 | 3 | 61 | 161 | 1 | 94 | 4.69e-39 | 130 |
| Msa1135180 | MtrunA17_Chr4g0066741 | 37.736 | 106 | 54 | 5 | 50 | 146 | 196 | 298 | 9.52e-13 | 65.1 |
| Msa1135180 | MtrunA17_Chr2g0286291 | 31.933 | 119 | 70 | 5 | 50 | 161 | 199 | 313 | 4.64e-12 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1135180 | AT5G18620.1 | 37.864 | 103 | 56 | 4 | 49 | 144 | 201 | 302 | 2.78e-14 | 69.7 |
| Msa1135180 | AT5G18620.2 | 37.864 | 103 | 56 | 4 | 49 | 144 | 201 | 302 | 2.87e-14 | 69.7 |
| Msa1135180 | AT3G06400.2 | 36.893 | 103 | 57 | 4 | 49 | 144 | 196 | 297 | 5.94e-14 | 68.9 |
| Msa1135180 | AT3G06400.1 | 36.893 | 103 | 57 | 4 | 49 | 144 | 196 | 297 | 6.06e-14 | 68.9 |
| Msa1135180 | AT3G06400.3 | 36.893 | 103 | 57 | 4 | 49 | 144 | 196 | 297 | 6.12e-14 | 68.9 |
Find 31 sgRNAs with CRISPR-Local
Find 82 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTCCATCACCATTTAATTT+TGG | 0.165025 | 7_4:+2105830 | None:intergenic |
| TTAAACTCTCCAAAATTAAA+TGG | 0.244854 | 7_4:-2105839 | Msa1135180:CDS |
| ATGATACTCTAAGCCTTAAT+TGG | 0.261799 | 7_4:-2106255 | Msa1135180:CDS |
| AGTGAAATATCATGATTTAA+AGG | 0.299376 | 7_4:-2105949 | Msa1135180:CDS |
| CAACAACTCAGGAGAATTAA+TGG | 0.337925 | 7_4:-2106053 | Msa1135180:CDS |
| AAATATCAATCAGCCAATTA+AGG | 0.350978 | 7_4:+2106242 | None:intergenic |
| GAAGGATTCCTTTCCATCCT+AGG | 0.377685 | 7_4:+2106560 | None:intergenic |
| AAATACCTTCGATTGATAGA+AGG | 0.404032 | 7_4:+2106542 | None:intergenic |
| TATTTCACTGTATTTAGCTC+TGG | 0.423345 | 7_4:+2105963 | None:intergenic |
| TTTAAAGGAAGCTGATTTGA+AGG | 0.442829 | 7_4:-2105934 | Msa1135180:CDS |
| AATAGGCAGTAACGTGGCGC+TGG | 0.447524 | 7_4:-2106284 | Msa1135180:intron |
| TGTTGCAAACGATGTTGAAA+AGG | 0.485389 | 7_4:-2105865 | Msa1135180:CDS |
| CCAATGGTCCATCATCAACT+TGG | 0.486458 | 7_4:+2106010 | None:intergenic |
| TTGCTATTGTCGTTGCTCCT+AGG | 0.496558 | 7_4:-2106577 | Msa1135180:CDS |
| CCAAGTTGATGATGGACCAT+TGG | 0.514607 | 7_4:-2106010 | Msa1135180:CDS |
| TCTCCAAAATTAAATGGTGA+TGG | 0.515919 | 7_4:-2105833 | None:intergenic |
| GCTGATGATGATGGTGGGAG+TGG | 0.523385 | 7_4:-2106605 | Msa1135180:CDS |
| TCTCACGTCCAAGTTGATGA+TGG | 0.528994 | 7_4:-2106018 | Msa1135180:CDS |
| TATTAATCTTATCAATCCAA+TGG | 0.563475 | 7_4:+2105994 | None:intergenic |
| TATTGTCGTTGCTCCTAGGA+TGG | 0.566845 | 7_4:-2106573 | Msa1135180:CDS |
| ATAGGCAGTAACGTGGCGCT+GGG | 0.577207 | 7_4:-2106283 | Msa1135180:intron |
| AAAGTTGCTGCTGATGATGA+TGG | 0.585831 | 7_4:-2106614 | Msa1135180:CDS |
| TATCATACTTGCAACAACTC+AGG | 0.593179 | 7_4:-2106064 | Msa1135180:CDS |
| TCGTTGCTCCTAGGATGGAA+AGG | 0.616152 | 7_4:-2106568 | Msa1135180:CDS |
| GGAATCCTTCTATCAATCGA+AGG | 0.618500 | 7_4:-2106547 | Msa1135180:intron |
| TGGAGTCTTAGCATACGAGA+AGG | 0.658530 | 7_4:-2106203 | Msa1135180:intron |
| TTGTTCAATAGGCAGTAACG+TGG | 0.663232 | 7_4:-2106290 | Msa1135180:intron |
| TTGCTGCTGATGATGATGGT+GGG | 0.685686 | 7_4:-2106610 | Msa1135180:CDS |
| GTTGCTGCTGATGATGATGG+TGG | 0.691465 | 7_4:-2106611 | Msa1135180:CDS |
| TTGGACGTGAGAATCAAATG+AGG | 0.697694 | 7_4:+2106029 | None:intergenic |
| ATGGTTGTTGATCTTGAACG+TGG | 0.764959 | 7_4:-2106638 | Msa1135180:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTAAGTTTTCTTTTATTTC+AGG | - | chr7_4:2106020-2106039 | Msa1135180:CDS | 15.0% |
| !!! | AAGTTTTTTTAATTTTGTTC+AGG | - | chr7_4:2106100-2106119 | Msa1135180:intron | 15.0% |
| !!! | TTTAAGTTTTCTTTTATTTC+AGG | - | chr7_4:2106020-2106039 | Msa1135180:CDS | 15.0% |
| !!! | AAGTTTTTTTAATTTTGTTC+AGG | - | chr7_4:2106100-2106119 | Msa1135180:intron | 15.0% |
| !!! | AAGGTATTAACTATTGTTAT+GGG | - | chr7_4:2106290-2106309 | Msa1135180:intron | 20.0% |
| !! | TATTAATCTTATCAATCCAA+TGG | + | chr7_4:2106483-2106502 | None:intergenic | 20.0% |
| !! | AGTGAAATATCATGATTTAA+AGG | - | chr7_4:2106525-2106544 | Msa1135180:intron | 20.0% |
| !! | TTAAACTCTCCAAAATTAAA+TGG | - | chr7_4:2106635-2106654 | Msa1135180:CDS | 20.0% |
| !!! | AAGGTATTAACTATTGTTAT+GGG | - | chr7_4:2106290-2106309 | Msa1135180:intron | 20.0% |
| !! | TATTAATCTTATCAATCCAA+TGG | + | chr7_4:2106483-2106502 | None:intergenic | 20.0% |
| !! | AGTGAAATATCATGATTTAA+AGG | - | chr7_4:2106525-2106544 | Msa1135180:intron | 20.0% |
| !! | TTAAACTCTCCAAAATTAAA+TGG | - | chr7_4:2106635-2106654 | Msa1135180:CDS | 20.0% |
| ! | AGTTTCTTTAATCCATTGAA+TGG | - | chr7_4:2106128-2106147 | Msa1135180:intron | 25.0% |
| ! | AAATATCAATCAGCCAATTA+AGG | + | chr7_4:2106235-2106254 | None:intergenic | 25.0% |
| !!! | GAAGGTATTAACTATTGTTA+TGG | - | chr7_4:2106289-2106308 | Msa1135180:intron | 25.0% |
| ! | AGTTTCTTTAATCCATTGAA+TGG | - | chr7_4:2106128-2106147 | Msa1135180:intron | 25.0% |
| ! | AAATATCAATCAGCCAATTA+AGG | + | chr7_4:2106235-2106254 | None:intergenic | 25.0% |
| !!! | GAAGGTATTAACTATTGTTA+TGG | - | chr7_4:2106289-2106308 | Msa1135180:intron | 25.0% |
| AAATACCTTCGATTGATAGA+AGG | + | chr7_4:2105935-2105954 | None:intergenic | 30.0% | |
| AGATTAATGCAACCATTCAA+TGG | + | chr7_4:2106143-2106162 | None:intergenic | 30.0% | |
| TTGCCCATTATTTGTTCAAT+AGG | - | chr7_4:2106173-2106192 | Msa1135180:intron | 30.0% | |
| CTGCCTATTGAACAAATAAT+GGG | + | chr7_4:2106179-2106198 | None:intergenic | 30.0% | |
| ACTGCCTATTGAACAAATAA+TGG | + | chr7_4:2106180-2106199 | None:intergenic | 30.0% | |
| ATGATACTCTAAGCCTTAAT+TGG | - | chr7_4:2106219-2106238 | Msa1135180:CDS | 30.0% | |
| ! | ATTTTCGATCGATCTATGAA+TGG | - | chr7_4:2106251-2106270 | Msa1135180:CDS | 30.0% |
| ! | TATTTCACTGTATTTAGCTC+TGG | + | chr7_4:2106514-2106533 | None:intergenic | 30.0% |
| !! | TTTAAAGGAAGCTGATTTGA+AGG | - | chr7_4:2106540-2106559 | Msa1135180:intron | 30.0% |
| AAATACCTTCGATTGATAGA+AGG | + | chr7_4:2105935-2105954 | None:intergenic | 30.0% | |
| AGATTAATGCAACCATTCAA+TGG | + | chr7_4:2106143-2106162 | None:intergenic | 30.0% | |
| TTGCCCATTATTTGTTCAAT+AGG | - | chr7_4:2106173-2106192 | Msa1135180:intron | 30.0% | |
| CTGCCTATTGAACAAATAAT+GGG | + | chr7_4:2106179-2106198 | None:intergenic | 30.0% | |
| ACTGCCTATTGAACAAATAA+TGG | + | chr7_4:2106180-2106199 | None:intergenic | 30.0% | |
| ATGATACTCTAAGCCTTAAT+TGG | - | chr7_4:2106219-2106238 | Msa1135180:CDS | 30.0% | |
| ! | ATTTTCGATCGATCTATGAA+TGG | - | chr7_4:2106251-2106270 | Msa1135180:CDS | 30.0% |
| ! | TATTTCACTGTATTTAGCTC+TGG | + | chr7_4:2106514-2106533 | None:intergenic | 30.0% |
| !! | TTTAAAGGAAGCTGATTTGA+AGG | - | chr7_4:2106540-2106559 | Msa1135180:intron | 30.0% |
| !!! | CAATCGAAGGTATTTTACCT+AGG | - | chr7_4:2105940-2105959 | Msa1135180:CDS | 35.0% |
| TATCATACTTGCAACAACTC+AGG | - | chr7_4:2106410-2106429 | Msa1135180:intron | 35.0% | |
| CAACAACTCAGGAGAATTAA+TGG | - | chr7_4:2106421-2106440 | Msa1135180:intron | 35.0% | |
| TGTTGCAAACGATGTTGAAA+AGG | - | chr7_4:2106609-2106628 | Msa1135180:CDS | 35.0% | |
| !!! | CAATCGAAGGTATTTTACCT+AGG | - | chr7_4:2105940-2105959 | Msa1135180:CDS | 35.0% |
| TATCATACTTGCAACAACTC+AGG | - | chr7_4:2106410-2106429 | Msa1135180:intron | 35.0% | |
| CAACAACTCAGGAGAATTAA+TGG | - | chr7_4:2106421-2106440 | Msa1135180:intron | 35.0% | |
| TGTTGCAAACGATGTTGAAA+AGG | - | chr7_4:2106609-2106628 | Msa1135180:CDS | 35.0% | |
| ATGGTTGTTGATCTTGAACG+TGG | - | chr7_4:2105836-2105855 | Msa1135180:CDS | 40.0% | |
| ! | AAAGTTGCTGCTGATGATGA+TGG | - | chr7_4:2105860-2105879 | Msa1135180:CDS | 40.0% |
| GGAATCCTTCTATCAATCGA+AGG | - | chr7_4:2105927-2105946 | Msa1135180:CDS | 40.0% | |
| TTGTTCAATAGGCAGTAACG+TGG | - | chr7_4:2106184-2106203 | Msa1135180:intron | 40.0% | |
| TTGGACGTGAGAATCAAATG+AGG | + | chr7_4:2106448-2106467 | None:intergenic | 40.0% | |
| ATGGTTGTTGATCTTGAACG+TGG | - | chr7_4:2105836-2105855 | Msa1135180:CDS | 40.0% | |
| ! | AAAGTTGCTGCTGATGATGA+TGG | - | chr7_4:2105860-2105879 | Msa1135180:CDS | 40.0% |
| GGAATCCTTCTATCAATCGA+AGG | - | chr7_4:2105927-2105946 | Msa1135180:CDS | 40.0% | |
| TTGTTCAATAGGCAGTAACG+TGG | - | chr7_4:2106184-2106203 | Msa1135180:intron | 40.0% | |
| TTGGACGTGAGAATCAAATG+AGG | + | chr7_4:2106448-2106467 | None:intergenic | 40.0% | |
| !! | TTGCTGCTGATGATGATGGT+GGG | - | chr7_4:2105864-2105883 | Msa1135180:CDS | 45.0% |
| ! | TTGCTATTGTCGTTGCTCCT+AGG | - | chr7_4:2105897-2105916 | Msa1135180:CDS | 45.0% |
| TATTGTCGTTGCTCCTAGGA+TGG | - | chr7_4:2105901-2105920 | Msa1135180:CDS | 45.0% | |
| GAAGGATTCCTTTCCATCCT+AGG | + | chr7_4:2105917-2105936 | None:intergenic | 45.0% | |
| TCAATCACGATTTGCGTCCT+AGG | + | chr7_4:2105960-2105979 | None:intergenic | 45.0% | |
| TGGAGTCTTAGCATACGAGA+AGG | - | chr7_4:2106271-2106290 | Msa1135180:CDS | 45.0% | |
| !! | TCTCACGTCCAAGTTGATGA+TGG | - | chr7_4:2106456-2106475 | Msa1135180:intron | 45.0% |
| CCAATGGTCCATCATCAACT+TGG | + | chr7_4:2106467-2106486 | None:intergenic | 45.0% | |
| !! | CCAAGTTGATGATGGACCAT+TGG | - | chr7_4:2106464-2106483 | Msa1135180:intron | 45.0% |
| !! | TTGCTGCTGATGATGATGGT+GGG | - | chr7_4:2105864-2105883 | Msa1135180:CDS | 45.0% |
| ! | TTGCTATTGTCGTTGCTCCT+AGG | - | chr7_4:2105897-2105916 | Msa1135180:CDS | 45.0% |
| TATTGTCGTTGCTCCTAGGA+TGG | - | chr7_4:2105901-2105920 | Msa1135180:CDS | 45.0% | |
| GAAGGATTCCTTTCCATCCT+AGG | + | chr7_4:2105917-2105936 | None:intergenic | 45.0% | |
| TCAATCACGATTTGCGTCCT+AGG | + | chr7_4:2105960-2105979 | None:intergenic | 45.0% | |
| TGGAGTCTTAGCATACGAGA+AGG | - | chr7_4:2106271-2106290 | Msa1135180:CDS | 45.0% | |
| !! | TCTCACGTCCAAGTTGATGA+TGG | - | chr7_4:2106456-2106475 | Msa1135180:intron | 45.0% |
| CCAATGGTCCATCATCAACT+TGG | + | chr7_4:2106467-2106486 | None:intergenic | 45.0% | |
| !! | CCAAGTTGATGATGGACCAT+TGG | - | chr7_4:2106464-2106483 | Msa1135180:intron | 45.0% |
| !! | GTTGCTGCTGATGATGATGG+TGG | - | chr7_4:2105863-2105882 | Msa1135180:CDS | 50.0% |
| TCGTTGCTCCTAGGATGGAA+AGG | - | chr7_4:2105906-2105925 | Msa1135180:CDS | 50.0% | |
| !! | GTTGCTGCTGATGATGATGG+TGG | - | chr7_4:2105863-2105882 | Msa1135180:CDS | 50.0% |
| TCGTTGCTCCTAGGATGGAA+AGG | - | chr7_4:2105906-2105925 | Msa1135180:CDS | 50.0% | |
| !! | GCTGATGATGATGGTGGGAG+TGG | - | chr7_4:2105869-2105888 | Msa1135180:CDS | 55.0% |
| AATAGGCAGTAACGTGGCGC+TGG | - | chr7_4:2106190-2106209 | Msa1135180:intron | 55.0% | |
| ATAGGCAGTAACGTGGCGCT+GGG | - | chr7_4:2106191-2106210 | Msa1135180:intron | 55.0% | |
| !! | GCTGATGATGATGGTGGGAG+TGG | - | chr7_4:2105869-2105888 | Msa1135180:CDS | 55.0% |
| AATAGGCAGTAACGTGGCGC+TGG | - | chr7_4:2106190-2106209 | Msa1135180:intron | 55.0% | |
| ATAGGCAGTAACGTGGCGCT+GGG | - | chr7_4:2106191-2106210 | Msa1135180:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 2105836 | 2106660 | 2105836 | ID=Msa1135180;Name=Msa1135180 |
| chr7_4 | mRNA | 2105836 | 2106660 | 2105836 | ID=Msa1135180-mRNA-1;Parent=Msa1135180;Name=Msa1135180-mRNA-1;_AED=0.37;_eAED=0.37;_QI=0|0|0|0.66|1|1|3|0|161 |
| chr7_4 | exon | 2106548 | 2106660 | 2106548 | ID=Msa1135180-mRNA-1:exon:772;Parent=Msa1135180-mRNA-1 |
| chr7_4 | exon | 2106204 | 2106297 | 2106204 | ID=Msa1135180-mRNA-1:exon:771;Parent=Msa1135180-mRNA-1 |
| chr7_4 | exon | 2105836 | 2106114 | 2105836 | ID=Msa1135180-mRNA-1:exon:770;Parent=Msa1135180-mRNA-1 |
| chr7_4 | CDS | 2106548 | 2106660 | 2106548 | ID=Msa1135180-mRNA-1:cds;Parent=Msa1135180-mRNA-1 |
| chr7_4 | CDS | 2106204 | 2106297 | 2106204 | ID=Msa1135180-mRNA-1:cds;Parent=Msa1135180-mRNA-1 |
| chr7_4 | CDS | 2105836 | 2106114 | 2105836 | ID=Msa1135180-mRNA-1:cds;Parent=Msa1135180-mRNA-1 |
| Gene Sequence |
| Protein sequence |
