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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0241380 | AES64821.1 | 88.800 | 125 | 14 | 0 | 1 | 125 | 36 | 160 | 7.21e-73 | 224 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0241380 | sp|Q6ZAR0|ROC1_ORYSJ | 35.849 | 106 | 59 | 2 | 2 | 98 | 125 | 230 | 2.27e-13 | 68.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0241380 | G7IMI5 | 88.800 | 125 | 14 | 0 | 1 | 125 | 36 | 160 | 3.44e-73 | 224 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0241380 | TF | HB-other |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0241380 | MtrunA17_Chr2g0292781 | 80.682 | 88 | 14 | 1 | 38 | 125 | 2 | 86 | 1.27e-43 | 137 |
| Msa0241380 | MtrunA17_Chr4g0024351 | 31.343 | 134 | 79 | 4 | 2 | 122 | 79 | 212 | 1.03e-12 | 63.5 |
| Msa0241380 | MtrunA17_Chr2g0322731 | 31.967 | 122 | 71 | 3 | 2 | 111 | 119 | 240 | 2.12e-12 | 62.4 |
| Msa0241380 | MtrunA17_Chr1g0203671 | 30.303 | 132 | 78 | 4 | 2 | 120 | 114 | 244 | 3.06e-11 | 59.3 |
| Msa0241380 | MtrunA17_Chr2g0331581 | 31.481 | 108 | 63 | 3 | 1 | 97 | 157 | 264 | 9.97e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0241380 | AT5G17320.1 | 34.579 | 107 | 60 | 3 | 2 | 98 | 45 | 151 | 4.01e-12 | 62.0 |
| Msa0241380 | AT1G05230.8 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 4.73e-12 | 62.0 |
| Msa0241380 | AT1G05230.4 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 4.73e-12 | 62.0 |
| Msa0241380 | AT1G05230.9 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 4.73e-12 | 62.0 |
| Msa0241380 | AT1G05230.10 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 4.73e-12 | 62.0 |
| Msa0241380 | AT1G05230.7 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 4.73e-12 | 62.0 |
| Msa0241380 | AT1G05230.11 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 4.73e-12 | 62.0 |
| Msa0241380 | AT1G05230.2 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 4.73e-12 | 62.0 |
| Msa0241380 | AT1G05230.6 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 4.73e-12 | 62.0 |
| Msa0241380 | AT1G05230.5 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 4.73e-12 | 62.0 |
| Msa0241380 | AT1G05230.1 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 4.73e-12 | 62.0 |
| Msa0241380 | AT1G05230.3 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 5.06e-12 | 62.0 |
| Msa0241380 | AT1G05230.12 | 33.962 | 106 | 61 | 2 | 2 | 98 | 83 | 188 | 1.45e-11 | 60.5 |
| Msa0241380 | AT1G79840.5 | 35.000 | 100 | 61 | 2 | 1 | 97 | 119 | 217 | 4.42e-11 | 59.3 |
| Msa0241380 | AT1G79840.1 | 35.000 | 100 | 61 | 2 | 1 | 97 | 119 | 217 | 6.06e-11 | 58.9 |
| Msa0241380 | AT1G79840.4 | 35.000 | 100 | 61 | 2 | 1 | 97 | 119 | 217 | 6.56e-11 | 58.5 |
| Msa0241380 | AT1G79840.3 | 35.000 | 100 | 61 | 2 | 1 | 97 | 61 | 159 | 6.56e-11 | 58.5 |
| Msa0241380 | AT1G79840.6 | 35.000 | 100 | 61 | 2 | 1 | 97 | 61 | 159 | 6.56e-11 | 58.5 |
| Msa0241380 | AT1G79840.2 | 35.000 | 100 | 61 | 2 | 1 | 97 | 148 | 246 | 6.77e-11 | 58.5 |
Find 24 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTCCATCTGATGATCTTTC+GGG | 0.269210 | 2_2:-16854875 | None:intergenic |
| AACCACCAGTTCACTTGTTT+TGG | 0.280631 | 2_2:-16854364 | None:intergenic |
| GGTTCCATCTGATGATCTTT+CGG | 0.329348 | 2_2:-16854876 | None:intergenic |
| AGCTGAAATTCAAATGCATT+TGG | 0.349094 | 2_2:+16854555 | Msa0241380:CDS |
| TCCTCTTCTCCCAAGTAGCT+TGG | 0.386243 | 2_2:-16854824 | None:intergenic |
| AAAATTGAATCCAAGCTACT+TGG | 0.431354 | 2_2:+16854814 | Msa0241380:CDS |
| AATGCATTTGGAAGCGAAAA+GGG | 0.449227 | 2_2:+16854567 | Msa0241380:CDS |
| AAATGCATTTGGAAGCGAAA+AGG | 0.450705 | 2_2:+16854566 | Msa0241380:CDS |
| TTTGGAAGCGAAAAGGGAAA+TGG | 0.469455 | 2_2:+16854573 | Msa0241380:CDS |
| CTCTCACTGGAGTTGAAGTT+AGG | 0.473633 | 2_2:+16854848 | Msa0241380:CDS |
| ATACAAAAGAGCTCAAGTTA+AGG | 0.476145 | 2_2:+16854390 | Msa0241380:CDS |
| TTGAGCCAAAACAAGTGAAC+TGG | 0.483755 | 2_2:+16854359 | Msa0241380:CDS |
| TGGCTCAAGACCAAGCTCTT+CGG | 0.488016 | 2_2:-16854344 | None:intergenic |
| AACGTGAATCACGGCATGCT+TGG | 0.497561 | 2_2:-16854618 | None:intergenic |
| TCTCAAGAATGCTACTCAAA+AGG | 0.498418 | 2_2:+16854513 | Msa0241380:intron |
| AAATGAACTTCTGAAAGAAA+AGG | 0.522170 | 2_2:+16854660 | Msa0241380:CDS |
| GGGAGAAGAGGAACTCTCAC+TGG | 0.543091 | 2_2:+16854835 | Msa0241380:CDS |
| TCCAAGCTACTTGGGAGAAG+AGG | 0.544024 | 2_2:+16854823 | Msa0241380:CDS |
| AGTGAAATAGCCGAAGAGCT+TGG | 0.563271 | 2_2:+16854334 | Msa0241380:CDS |
| GTTGTTTCAAACGTGAATCA+CGG | 0.584844 | 2_2:-16854627 | None:intergenic |
| AGCCAAAACAAGTGAACTGG+TGG | 0.610770 | 2_2:+16854362 | Msa0241380:CDS |
| AAATTGAATCCAAGCTACTT+GGG | 0.627395 | 2_2:+16854815 | Msa0241380:CDS |
| ATTCACGTTTGAAACAACTT+CGG | 0.629375 | 2_2:+16854632 | Msa0241380:CDS |
| CTTCCCGAAAGATCATCAGA+TGG | 0.663295 | 2_2:+16854872 | Msa0241380:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CTAAGATGTTTTTTTATTAA+TGG | + | chr2_2:16854728-16854747 | Msa0241380:intron | 15.0% |
| !! | TAGTATGTTATATCAATTAG+TGG | - | chr2_2:16854470-16854489 | None:intergenic | 20.0% |
| !! | AAATGAACTTCTGAAAGAAA+AGG | + | chr2_2:16854660-16854679 | Msa0241380:CDS | 25.0% |
| !!! | TCACTTTTTTGCTTATGAGT+TGG | - | chr2_2:16854319-16854338 | None:intergenic | 30.0% |
| ATACAAAAGAGCTCAAGTTA+AGG | + | chr2_2:16854390-16854409 | Msa0241380:CDS | 30.0% | |
| GGCATGTAAAAAGAATTGAA+TGG | - | chr2_2:16854449-16854468 | None:intergenic | 30.0% | |
| AGCTGAAATTCAAATGCATT+TGG | + | chr2_2:16854555-16854574 | Msa0241380:CDS | 30.0% | |
| ! | ATTCACGTTTGAAACAACTT+CGG | + | chr2_2:16854632-16854651 | Msa0241380:CDS | 30.0% |
| AAAATTGAATCCAAGCTACT+TGG | + | chr2_2:16854814-16854833 | Msa0241380:CDS | 30.0% | |
| AAATTGAATCCAAGCTACTT+GGG | + | chr2_2:16854815-16854834 | Msa0241380:CDS | 30.0% | |
| TCTCAAGAATGCTACTCAAA+AGG | + | chr2_2:16854513-16854532 | Msa0241380:intron | 35.0% | |
| AAATGCATTTGGAAGCGAAA+AGG | + | chr2_2:16854566-16854585 | Msa0241380:CDS | 35.0% | |
| AATGCATTTGGAAGCGAAAA+GGG | + | chr2_2:16854567-16854586 | Msa0241380:CDS | 35.0% | |
| ! | GTTGTTTCAAACGTGAATCA+CGG | - | chr2_2:16854630-16854649 | None:intergenic | 35.0% |
| TTGAGCCAAAACAAGTGAAC+TGG | + | chr2_2:16854359-16854378 | Msa0241380:CDS | 40.0% | |
| ! | AACCACCAGTTCACTTGTTT+TGG | - | chr2_2:16854367-16854386 | None:intergenic | 40.0% |
| TTTGGAAGCGAAAAGGGAAA+TGG | + | chr2_2:16854573-16854592 | Msa0241380:CDS | 40.0% | |
| GTTCCATCTGATGATCTTTC+GGG | - | chr2_2:16854878-16854897 | None:intergenic | 40.0% | |
| GGTTCCATCTGATGATCTTT+CGG | - | chr2_2:16854879-16854898 | None:intergenic | 40.0% | |
| AGTGAAATAGCCGAAGAGCT+TGG | + | chr2_2:16854334-16854353 | Msa0241380:CDS | 45.0% | |
| AGCCAAAACAAGTGAACTGG+TGG | + | chr2_2:16854362-16854381 | Msa0241380:CDS | 45.0% | |
| CTCTCACTGGAGTTGAAGTT+AGG | + | chr2_2:16854848-16854867 | Msa0241380:CDS | 45.0% | |
| CTTCCCGAAAGATCATCAGA+TGG | + | chr2_2:16854872-16854891 | Msa0241380:CDS | 45.0% | |
| TGGCTCAAGACCAAGCTCTT+CGG | - | chr2_2:16854347-16854366 | None:intergenic | 50.0% | |
| AACGTGAATCACGGCATGCT+TGG | - | chr2_2:16854621-16854640 | None:intergenic | 50.0% | |
| TCCAAGCTACTTGGGAGAAG+AGG | + | chr2_2:16854823-16854842 | Msa0241380:CDS | 50.0% | |
| TCCTCTTCTCCCAAGTAGCT+TGG | - | chr2_2:16854827-16854846 | None:intergenic | 50.0% | |
| GGGAGAAGAGGAACTCTCAC+TGG | + | chr2_2:16854835-16854854 | Msa0241380:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 16854295 | 16854904 | 16854295 | ID=Msa0241380;Name=Msa0241380 |
| chr2_2 | mRNA | 16854295 | 16854904 | 16854295 | ID=Msa0241380-mRNA-1;Parent=Msa0241380;Name=Msa0241380-mRNA-1;_AED=0.14;_eAED=0.14;_QI=0|0|0|1|1|0.33|3|0|125 |
| chr2_2 | exon | 16854295 | 16854411 | 16854295 | ID=Msa0241380-mRNA-1:exon:6969;Parent=Msa0241380-mRNA-1 |
| chr2_2 | exon | 16854520 | 16854681 | 16854520 | ID=Msa0241380-mRNA-1:exon:6970;Parent=Msa0241380-mRNA-1 |
| chr2_2 | exon | 16854809 | 16854904 | 16854809 | ID=Msa0241380-mRNA-1:exon:6971;Parent=Msa0241380-mRNA-1 |
| chr2_2 | CDS | 16854295 | 16854411 | 16854295 | ID=Msa0241380-mRNA-1:cds;Parent=Msa0241380-mRNA-1 |
| chr2_2 | CDS | 16854520 | 16854681 | 16854520 | ID=Msa0241380-mRNA-1:cds;Parent=Msa0241380-mRNA-1 |
| chr2_2 | CDS | 16854809 | 16854904 | 16854809 | ID=Msa0241380-mRNA-1:cds;Parent=Msa0241380-mRNA-1 |
| Gene Sequence |
| Protein sequence |
