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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0342770 | XP_039683887.1 | 68.639 | 169 | 29 | 3 | 1 | 146 | 1 | 168 | 3.53e-64 | 219 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0342770 | A0A2K3JN18 | 49.398 | 83 | 42 | 0 | 46 | 128 | 38 | 120 | 3.27e-20 | 94.4 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0342770 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0342770 | MtrunA17_Chr5g0441581 | 47.706 | 109 | 54 | 2 | 18 | 125 | 11 | 117 | 1.64e-21 | 89.7 |
| Msa0342770 | MtrunA17_Chr6g0451441 | 44.578 | 83 | 44 | 1 | 46 | 128 | 93 | 173 | 1.16e-15 | 72.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 44 sgRNAs with CRISPR-Local
Find 60 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGTGTTGACGTTTCGGATTC+CGG | 0.204382 | 3_1:+733500 | Msa0342770:CDS |
| GATTGCAAACCCTTGTTTCA+TGG | 0.302647 | 3_1:-733627 | None:intergenic |
| GTGTTGACGTTTCGGATTCC+GGG | 0.344560 | 3_1:+733501 | Msa0342770:CDS |
| TGCGGCTCGTGTTGACGTTT+CGG | 0.362249 | 3_1:+733493 | Msa0342770:CDS |
| AAAGGATGATCGATCAATAT+AGG | 0.415391 | 3_1:-733440 | None:intergenic |
| TTGGTGGTATGTTTGATTCA+TGG | 0.433399 | 3_1:-733724 | None:intergenic |
| CCATCAGCTAGCTCTCCGTC+AGG | 0.451558 | 3_1:-733470 | None:intergenic |
| TATCCTACTTTGCTAGAATG+AGG | 0.459924 | 3_1:+734089 | Msa0342770:CDS |
| AAAACTAGAAACTCTAAGAA+AGG | 0.460138 | 3_1:+733650 | Msa0342770:CDS |
| AAACTAGAAACTCTAAGAAA+GGG | 0.460938 | 3_1:+733651 | Msa0342770:CDS |
| GCAAAAGAAAGACACCTTCT+CGG | 0.472868 | 3_1:+734040 | Msa0342770:CDS |
| GATAACGGTTGCTTTAAAGA+AGG | 0.473052 | 3_1:+733790 | Msa0342770:CDS |
| GAGCAATCAAGTTTCTTCGT+TGG | 0.480101 | 3_1:-733761 | None:intergenic |
| CACTTATGCTCGATGGCTGA+TGG | 0.482201 | 3_1:+733413 | None:intergenic |
| TCGGGAAGGAAGGAGATGGC+AGG | 0.482875 | 3_1:+734059 | Msa0342770:CDS |
| ATTTGTTGTTTCAAAGGTCC+CGG | 0.485747 | 3_1:-733519 | None:intergenic |
| GACAGCATTTGTTGTTTCAA+AGG | 0.491833 | 3_1:-733525 | None:intergenic |
| CTTGTTTCATGGCATATTCA+CGG | 0.492232 | 3_1:-733616 | None:intergenic |
| CGTGAATATGCCATGAAACA+AGG | 0.498225 | 3_1:+733617 | Msa0342770:CDS |
| TTAAAAGACATACCGATAGT+AGG | 0.501742 | 3_1:-733566 | None:intergenic |
| GTTGGATTCGTCTTCAAAGT+TGG | 0.502236 | 3_1:-733743 | None:intergenic |
| CATCTCCTTCCTTCCCGAGA+AGG | 0.502837 | 3_1:-734054 | None:intergenic |
| GAGAGATGTCAGAAACTTTG+TGG | 0.514693 | 3_1:+734018 | Msa0342770:intron |
| CAAAAGAAAGACACCTTCTC+GGG | 0.517286 | 3_1:+734041 | Msa0342770:CDS |
| ATAACGGTTGCTTTAAAGAA+GGG | 0.522275 | 3_1:+733791 | Msa0342770:CDS |
| TTCCCTCATTCTAGCAAAGT+AGG | 0.524536 | 3_1:-734092 | None:intergenic |
| GGATTCGTCTTCAAAGTTGG+TGG | 0.530111 | 3_1:-733740 | None:intergenic |
| ATCCTACTTTGCTAGAATGA+GGG | 0.537508 | 3_1:+734090 | Msa0342770:CDS |
| CATCAGCTAGCTCTCCGTCA+GGG | 0.541329 | 3_1:-733469 | None:intergenic |
| TGATTGCTCAGCTAAGATAA+CGG | 0.550952 | 3_1:+733775 | Msa0342770:CDS |
| GATAAATTCACGCCTACTAT+CGG | 0.551302 | 3_1:+733554 | Msa0342770:CDS |
| ATTCTAACTTGTGCAAGAGA+AGG | 0.552020 | 3_1:+733698 | Msa0342770:CDS |
| AGACACCTTCTCGGGAAGGA+AGG | 0.553011 | 3_1:+734049 | Msa0342770:CDS |
| AACTCTAAGAAAGGGGCCGA+TGG | 0.560180 | 3_1:+733659 | Msa0342770:CDS |
| ATCAGCTAGCTCTCCGTCAG+GGG | 0.582853 | 3_1:-733468 | None:intergenic |
| GTGAATATGCCATGAAACAA+GGG | 0.602322 | 3_1:+733618 | Msa0342770:CDS |
| AGAAAGACACCTTCTCGGGA+AGG | 0.609091 | 3_1:+734045 | Msa0342770:CDS |
| CGGGAAGGAAGGAGATGGCA+GGG | 0.622349 | 3_1:+734060 | Msa0342770:CDS |
| CCTGACGGAGAGCTAGCTGA+TGG | 0.623440 | 3_1:+733470 | Msa0342770:CDS |
| CTTCTCGGGAAGGAAGGAGA+TGG | 0.631777 | 3_1:+734055 | Msa0342770:CDS |
| AACTAGAAACTCTAAGAAAG+GGG | 0.633083 | 3_1:+733652 | Msa0342770:CDS |
| GGATGATCGATCAATATAGG+AGG | 0.639611 | 3_1:-733437 | None:intergenic |
| TCAGCTAGCTCTCCGTCAGG+GGG | 0.662037 | 3_1:-733467 | None:intergenic |
| CGGAGAGCTAGCTGATGGTG+CGG | 0.662675 | 3_1:+733475 | Msa0342770:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATCGGTATGTCTTTTAAAT+CGG | + | chr3_1:733571-733590 | Msa0342770:intron | 25.0% |
| !! | AAAACTAGAAACTCTAAGAA+AGG | + | chr3_1:733650-733669 | Msa0342770:CDS | 25.0% |
| !! | AAACTAGAAACTCTAAGAAA+GGG | + | chr3_1:733651-733670 | Msa0342770:CDS | 25.0% |
| !!! | GAAATATTTTAACATGCCAT+CGG | - | chr3_1:733678-733697 | None:intergenic | 25.0% |
| ! | TTACGAAAATCTAACATTTG+TGG | + | chr3_1:733994-734013 | Msa0342770:intron | 25.0% |
| AAAGGATGATCGATCAATAT+AGG | - | chr3_1:733443-733462 | None:intergenic | 30.0% | |
| TTAAAAGACATACCGATAGT+AGG | - | chr3_1:733569-733588 | None:intergenic | 30.0% | |
| ! | AACTAGAAACTCTAAGAAAG+GGG | + | chr3_1:733652-733671 | Msa0342770:CDS | 30.0% |
| !! | ATAACGGTTGCTTTAAAGAA+GGG | + | chr3_1:733791-733810 | Msa0342770:CDS | 30.0% |
| AGATAAGTCCAACTAAATCA+CGG | + | chr3_1:733855-733874 | Msa0342770:intron | 30.0% | |
| !! | GACAATTTTGATAAACGATC+AGG | + | chr3_1:733919-733938 | Msa0342770:intron | 30.0% |
| !! | ATTTGTTGTTTCAAAGGTCC+CGG | - | chr3_1:733522-733541 | None:intergenic | 35.0% |
| !! | GACAGCATTTGTTGTTTCAA+AGG | - | chr3_1:733528-733547 | None:intergenic | 35.0% |
| GATAAATTCACGCCTACTAT+CGG | + | chr3_1:733554-733573 | Msa0342770:CDS | 35.0% | |
| CTTGTTTCATGGCATATTCA+CGG | - | chr3_1:733619-733638 | None:intergenic | 35.0% | |
| GTGAATATGCCATGAAACAA+GGG | + | chr3_1:733618-733637 | Msa0342770:CDS | 35.0% | |
| ! | ATTCTAACTTGTGCAAGAGA+AGG | + | chr3_1:733698-733717 | Msa0342770:CDS | 35.0% |
| ! | TTGGTGGTATGTTTGATTCA+TGG | - | chr3_1:733727-733746 | None:intergenic | 35.0% |
| TGATTGCTCAGCTAAGATAA+CGG | + | chr3_1:733775-733794 | Msa0342770:CDS | 35.0% | |
| !! | GATAACGGTTGCTTTAAAGA+AGG | + | chr3_1:733790-733809 | Msa0342770:CDS | 35.0% |
| !! | TTGCTTTAAAGAAGGGTCTA+TGG | + | chr3_1:733798-733817 | Msa0342770:intron | 35.0% |
| !! | ATTTTGATAAACGATCAGGC+AGG | + | chr3_1:733923-733942 | Msa0342770:intron | 35.0% |
| ! | TGTTAGATTTTCGTAACCAC+CGG | - | chr3_1:733990-734009 | None:intergenic | 35.0% |
| GGATGATCGATCAATATAGG+AGG | - | chr3_1:733440-733459 | None:intergenic | 40.0% | |
| CGTGAATATGCCATGAAACA+AGG | + | chr3_1:733617-733636 | Msa0342770:CDS | 40.0% | |
| ! | GATTGCAAACCCTTGTTTCA+TGG | - | chr3_1:733630-733649 | None:intergenic | 40.0% |
| GTTGGATTCGTCTTCAAAGT+TGG | - | chr3_1:733746-733765 | None:intergenic | 40.0% | |
| GAGCAATCAAGTTTCTTCGT+TGG | - | chr3_1:733764-733783 | None:intergenic | 40.0% | |
| GCAAACAACCGTGATTTAGT+TGG | - | chr3_1:733866-733885 | None:intergenic | 40.0% | |
| ACTAAATCACGGTTGTTTGC+TGG | + | chr3_1:733866-733885 | Msa0342770:intron | 40.0% | |
| AGATTGATATGCATGCACAG+CGG | + | chr3_1:733897-733916 | Msa0342770:intron | 40.0% | |
| GAACAAAAGTTTCCGTTCCA+TGG | + | chr3_1:733955-733974 | Msa0342770:intron | 40.0% | |
| GAGAGATGTCAGAAACTTTG+TGG | + | chr3_1:734018-734037 | Msa0342770:intron | 40.0% | |
| GCAAAAGAAAGACACCTTCT+CGG | + | chr3_1:734040-734059 | Msa0342770:CDS | 40.0% | |
| CAAAAGAAAGACACCTTCTC+GGG | + | chr3_1:734041-734060 | Msa0342770:CDS | 40.0% | |
| CATCCTTTATTACCCCCTGA+CGG | + | chr3_1:733455-733474 | Msa0342770:CDS | 45.0% | |
| GGATTCGTCTTCAAAGTTGG+TGG | - | chr3_1:733743-733762 | None:intergenic | 45.0% | |
| TAAACGATCAGGCAGGTGTA+CGG | + | chr3_1:733930-733949 | Msa0342770:intron | 45.0% | |
| TCTCCGTCAGGGGGTAATAA+AGG | - | chr3_1:733461-733480 | None:intergenic | 50.0% | |
| ! | CGTGTTGACGTTTCGGATTC+CGG | + | chr3_1:733500-733519 | Msa0342770:CDS | 50.0% |
| ! | GTGTTGACGTTTCGGATTCC+GGG | + | chr3_1:733501-733520 | Msa0342770:CDS | 50.0% |
| ! | AACTCTAAGAAAGGGGCCGA+TGG | + | chr3_1:733659-733678 | Msa0342770:CDS | 50.0% |
| AAACGATCAGGCAGGTGTAC+GGG | + | chr3_1:733931-733950 | Msa0342770:intron | 50.0% | |
| CGGCATCACATACCATGGAA+CGG | - | chr3_1:733970-733989 | None:intergenic | 50.0% | |
| CGTTCCATGGTATGTGATGC+CGG | + | chr3_1:733968-733987 | Msa0342770:intron | 50.0% | |
| AGAAAGACACCTTCTCGGGA+AGG | + | chr3_1:734045-734064 | Msa0342770:CDS | 50.0% | |
| ! | ATCAGCTAGCTCTCCGTCAG+GGG | - | chr3_1:733471-733490 | None:intergenic | 55.0% |
| ! | CATCAGCTAGCTCTCCGTCA+GGG | - | chr3_1:733472-733491 | None:intergenic | 55.0% |
| ! | TGCGGCTCGTGTTGACGTTT+CGG | + | chr3_1:733493-733512 | Msa0342770:CDS | 55.0% |
| TCCATGGTATGTGATGCCGG+TGG | + | chr3_1:733971-733990 | Msa0342770:intron | 55.0% | |
| ACCACCGGCATCACATACCA+TGG | - | chr3_1:733975-733994 | None:intergenic | 55.0% | |
| AGACACCTTCTCGGGAAGGA+AGG | + | chr3_1:734049-734068 | Msa0342770:CDS | 55.0% | |
| CATCTCCTTCCTTCCCGAGA+AGG | - | chr3_1:734057-734076 | None:intergenic | 55.0% | |
| CTTCTCGGGAAGGAAGGAGA+TGG | + | chr3_1:734055-734074 | Msa0342770:CDS | 55.0% | |
| ! | TCAGCTAGCTCTCCGTCAGG+GGG | - | chr3_1:733470-733489 | None:intergenic | 60.0% |
| ! | CCATCAGCTAGCTCTCCGTC+AGG | - | chr3_1:733473-733492 | None:intergenic | 60.0% |
| CCTGACGGAGAGCTAGCTGA+TGG | + | chr3_1:733470-733489 | Msa0342770:CDS | 60.0% | |
| ! | CGGAGAGCTAGCTGATGGTG+CGG | + | chr3_1:733475-733494 | Msa0342770:CDS | 60.0% |
| TCGGGAAGGAAGGAGATGGC+AGG | + | chr3_1:734059-734078 | Msa0342770:CDS | 60.0% | |
| CGGGAAGGAAGGAGATGGCA+GGG | + | chr3_1:734060-734079 | Msa0342770:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 733425 | 734109 | 733425 | ID=Msa0342770;Name=Msa0342770 |
| chr3_1 | mRNA | 733425 | 734109 | 733425 | ID=Msa0342770-mRNA-1;Parent=Msa0342770;Name=Msa0342770-mRNA-1;_AED=0.26;_eAED=0.39;_QI=0|0|0|1|1|1|3|0|147 |
| chr3_1 | exon | 733425 | 733575 | 733425 | ID=Msa0342770-mRNA-1:exon:129;Parent=Msa0342770-mRNA-1 |
| chr3_1 | exon | 733600 | 733812 | 733600 | ID=Msa0342770-mRNA-1:exon:130;Parent=Msa0342770-mRNA-1 |
| chr3_1 | exon | 734030 | 734109 | 734030 | ID=Msa0342770-mRNA-1:exon:131;Parent=Msa0342770-mRNA-1 |
| chr3_1 | CDS | 733425 | 733575 | 733425 | ID=Msa0342770-mRNA-1:cds;Parent=Msa0342770-mRNA-1 |
| chr3_1 | CDS | 733600 | 733812 | 733600 | ID=Msa0342770-mRNA-1:cds;Parent=Msa0342770-mRNA-1 |
| chr3_1 | CDS | 734030 | 734109 | 734030 | ID=Msa0342770-mRNA-1:cds;Parent=Msa0342770-mRNA-1 |
| Gene Sequence |
| Protein sequence |
