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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0312490 | XP_039683260.1 | 82.558 | 172 | 7 | 1 | 1 | 149 | 1 | 172 | 1.18e-96 | 289 |
| 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 |
|---|---|---|
| Msa0312490 | TF | FAR1 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0312490 | MtrunA17_Chr6g0451441 | 58.333 | 156 | 42 | 2 | 15 | 149 | 70 | 223 | 7.45e-55 | 179 |
| Msa0312490 | MtrunA17_Chr5g0441581 | 54.651 | 172 | 45 | 3 | 1 | 149 | 1 | 162 | 6.80e-52 | 175 |
| Msa0312490 | MtrunA17_Chr2g0296781 | 29.851 | 134 | 72 | 1 | 38 | 149 | 1 | 134 | 8.56e-15 | 70.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 29 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCACATCTCTTTCATTAAA+TGG | 0.147918 | 2_4:+7640130 | None:intergenic |
| TTGAACAACCTTGCCTTTCT+AGG | 0.207197 | 2_4:+7640274 | None:intergenic |
| GTTCAAGGCTAACAAGAATA+TGG | 0.357986 | 2_4:-7640257 | Msa0312490:CDS |
| TAGAGAATATGCTTTGAGAA+AGG | 0.418901 | 2_4:-7640524 | Msa0312490:CDS |
| CCACAATCCACAAAAGCATT+TGG | 0.424359 | 2_4:+7640664 | None:intergenic |
| AGAGAATATGCTTTGAGAAA+GGG | 0.433857 | 2_4:-7640523 | Msa0312490:CDS |
| TGAACAACCTTGCCTTTCTA+GGG | 0.439320 | 2_4:+7640275 | None:intergenic |
| ACATCGAGAAAAGGAAATGA+TGG | 0.450797 | 2_4:-7640481 | Msa0312490:CDS |
| CTGGTATGATGAGAATGATT+AGG | 0.463235 | 2_4:+7640298 | None:intergenic |
| CAACCTTGCCTTTCTAGGGC+TGG | 0.475224 | 2_4:+7640279 | None:intergenic |
| TAGAAAGGCAAGGTTGTTCA+AGG | 0.476356 | 2_4:-7640272 | Msa0312490:CDS |
| AACTTGATACAAATCTTAGC+AGG | 0.490559 | 2_4:+7640358 | None:intergenic |
| TCATCATACCAGCCCTAGAA+AGG | 0.496553 | 2_4:-7640287 | Msa0312490:CDS |
| AAGATTAGAACATCGAGAAA+AGG | 0.501177 | 2_4:-7640490 | Msa0312490:CDS |
| TGTATCAAGTTGAAAGCAGA+TGG | 0.504773 | 2_4:-7640346 | Msa0312490:CDS |
| TTGAAGACACGTCCAACAAT+GGG | 0.506967 | 2_4:-7640391 | Msa0312490:intron |
| ATTCAAATCAATGATGATGC+AGG | 0.511726 | 2_4:-7640214 | Msa0312490:CDS |
| CATCGAGAAAAGGAAATGAT+GGG | 0.554779 | 2_4:-7640480 | Msa0312490:CDS |
| TGTGGTAGTATTCATGATGA+AGG | 0.558676 | 2_4:-7640646 | Msa0312490:CDS |
| ATTGAAGACACGTCCAACAA+TGG | 0.565861 | 2_4:-7640392 | Msa0312490:intron |
| AGTTGAAAGCAGATGGATTG+TGG | 0.593315 | 2_4:-7640339 | Msa0312490:CDS |
| ATGTTGAAAATGAAGATACA+TGG | 0.603276 | 2_4:-7640603 | Msa0312490:CDS |
| ATCGAGAAAAGGAAATGATG+GGG | 0.649742 | 2_4:-7640479 | Msa0312490:CDS |
| TTGAAAATGAAGATACATGG+TGG | 0.661586 | 2_4:-7640600 | Msa0312490:CDS |
| ATACCAGCCCTAGAAAGGCA+AGG | 0.674438 | 2_4:-7640282 | Msa0312490:CDS |
| TGAAAATGAAGATACATGGT+GGG | 0.685627 | 2_4:-7640599 | Msa0312490:CDS |
| GAGAAAAGGAAATGATGGGG+AGG | 0.686066 | 2_4:-7640476 | Msa0312490:intron |
| TCAATGATGATGCAGGTGTG+AGG | 0.717261 | 2_4:-7640207 | Msa0312490:CDS |
| CATTTAATGAAAGAGATGTG+AGG | 0.724148 | 2_4:-7640129 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATGTTGAAAATGAAGATACA+TGG | - | chr2_4:7640201-7640220 | Msa0312490:CDS | 25.0% |
| !! | GAAAAACACATATCTGTTTT+AGG | + | chr2_4:7640233-7640252 | None:intergenic | 25.0% |
| TTGAAAATGAAGATACATGG+TGG | - | chr2_4:7640204-7640223 | Msa0312490:CDS | 30.0% | |
| TGAAAATGAAGATACATGGT+GGG | - | chr2_4:7640205-7640224 | Msa0312490:CDS | 30.0% | |
| !! | TAGAGAATATGCTTTGAGAA+AGG | - | chr2_4:7640280-7640299 | Msa0312490:CDS | 30.0% |
| !! | AGAGAATATGCTTTGAGAAA+GGG | - | chr2_4:7640281-7640300 | Msa0312490:CDS | 30.0% |
| AAGATTAGAACATCGAGAAA+AGG | - | chr2_4:7640314-7640333 | Msa0312490:CDS | 30.0% | |
| AACTTGATACAAATCTTAGC+AGG | + | chr2_4:7640449-7640468 | None:intergenic | 30.0% | |
| ! | ATTCAAATCAATGATGATGC+AGG | - | chr2_4:7640590-7640609 | Msa0312490:CDS | 30.0% |
| TGTGGTAGTATTCATGATGA+AGG | - | chr2_4:7640158-7640177 | Msa0312490:intron | 35.0% | |
| !! | CTTTGAGAAAGGGTTTTGAT+TGG | - | chr2_4:7640291-7640310 | Msa0312490:CDS | 35.0% |
| ACATCGAGAAAAGGAAATGA+TGG | - | chr2_4:7640323-7640342 | Msa0312490:CDS | 35.0% | |
| CATCGAGAAAAGGAAATGAT+GGG | - | chr2_4:7640324-7640343 | Msa0312490:CDS | 35.0% | |
| ATCGAGAAAAGGAAATGATG+GGG | - | chr2_4:7640325-7640344 | Msa0312490:CDS | 35.0% | |
| !! | TGTATCAAGTTGAAAGCAGA+TGG | - | chr2_4:7640458-7640477 | Msa0312490:intron | 35.0% |
| CTGGTATGATGAGAATGATT+AGG | + | chr2_4:7640509-7640528 | None:intergenic | 35.0% | |
| GTTCAAGGCTAACAAGAATA+TGG | - | chr2_4:7640547-7640566 | Msa0312490:CDS | 35.0% | |
| CAATCTCTTGTTAAAGATGC+AGG | - | chr2_4:7640635-7640654 | Msa0312490:CDS | 35.0% | |
| ! | GGATAGTCCAAATGCTTTTG+TGG | - | chr2_4:7640133-7640152 | Msa0312490:CDS | 40.0% |
| !! | CCACAATCCACAAAAGCATT+TGG | + | chr2_4:7640143-7640162 | None:intergenic | 40.0% |
| !! | CCAAATGCTTTTGTGGATTG+TGG | - | chr2_4:7640140-7640159 | Msa0312490:CDS | 40.0% |
| TTCTTGCATGCACAAGAGAT+CGG | - | chr2_4:7640363-7640382 | Msa0312490:CDS | 40.0% | |
| ATTGAAGACACGTCCAACAA+TGG | - | chr2_4:7640412-7640431 | Msa0312490:intron | 40.0% | |
| TTGAAGACACGTCCAACAAT+GGG | - | chr2_4:7640413-7640432 | Msa0312490:intron | 40.0% | |
| !! | GGACAACTTTTTCCCATTGT+TGG | + | chr2_4:7640428-7640447 | None:intergenic | 40.0% |
| !! | AGTTGAAAGCAGATGGATTG+TGG | - | chr2_4:7640465-7640484 | Msa0312490:intron | 40.0% |
| TGAACAACCTTGCCTTTCTA+GGG | + | chr2_4:7640532-7640551 | None:intergenic | 40.0% | |
| TTGAACAACCTTGCCTTTCT+AGG | + | chr2_4:7640533-7640552 | None:intergenic | 40.0% | |
| TAGAAAGGCAAGGTTGTTCA+AGG | - | chr2_4:7640532-7640551 | Msa0312490:CDS | 40.0% | |
| TCTCTTGTTAAAGATGCAGG+CGG | - | chr2_4:7640638-7640657 | Msa0312490:CDS | 40.0% | |
| ! | GAGAAAAGGAAATGATGGGG+AGG | - | chr2_4:7640328-7640347 | Msa0312490:CDS | 45.0% |
| TCTTGCATGCACAAGAGATC+GGG | - | chr2_4:7640364-7640383 | Msa0312490:CDS | 45.0% | |
| TCATCATACCAGCCCTAGAA+AGG | - | chr2_4:7640517-7640536 | Msa0312490:CDS | 45.0% | |
| ! | TCAATGATGATGCAGGTGTG+AGG | - | chr2_4:7640597-7640616 | Msa0312490:CDS | 45.0% |
| CTCTTGTTAAAGATGCAGGC+GGG | - | chr2_4:7640639-7640658 | Msa0312490:CDS | 45.0% | |
| ATACCAGCCCTAGAAAGGCA+AGG | - | chr2_4:7640522-7640541 | Msa0312490:CDS | 50.0% | |
| !! | CAACCTTGCCTTTCTAGGGC+TGG | + | chr2_4:7640528-7640547 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 7640131 | 7640695 | 7640131 | ID=Msa0312490;Name=Msa0312490 |
| chr2_4 | mRNA | 7640131 | 7640695 | 7640131 | ID=Msa0312490-mRNA-1;Parent=Msa0312490;Name=Msa0312490-mRNA-1;_AED=0.24;_eAED=0.30;_QI=0|0|0|1|1|1|3|0|160 |
| chr2_4 | exon | 7640477 | 7640695 | 7640477 | ID=Msa0312490-mRNA-1:exon:2946;Parent=Msa0312490-mRNA-1 |
| chr2_4 | exon | 7640183 | 7640407 | 7640183 | ID=Msa0312490-mRNA-1:exon:2945;Parent=Msa0312490-mRNA-1 |
| chr2_4 | exon | 7640131 | 7640169 | 7640131 | ID=Msa0312490-mRNA-1:exon:2944;Parent=Msa0312490-mRNA-1 |
| chr2_4 | CDS | 7640477 | 7640695 | 7640477 | ID=Msa0312490-mRNA-1:cds;Parent=Msa0312490-mRNA-1 |
| chr2_4 | CDS | 7640183 | 7640407 | 7640183 | ID=Msa0312490-mRNA-1:cds;Parent=Msa0312490-mRNA-1 |
| chr2_4 | CDS | 7640131 | 7640169 | 7640131 | ID=Msa0312490-mRNA-1:cds;Parent=Msa0312490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
