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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0639290 | KAF4397433.1 | 99.048 | 105 | 1 | 0 | 1 | 105 | 50 | 154 | 2.20e-68 | 212 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0639290 | sp|Q96499|RL44_GOSHI | 97.143 | 105 | 3 | 0 | 1 | 105 | 1 | 105 | 4.34e-69 | 204 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0639290 | A0A7J6HQ78 | 99.048 | 105 | 1 | 0 | 1 | 105 | 50 | 154 | 1.05e-68 | 212 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0614630 | Msa0639290 | 0.903626 | 2.855751e-79 | -8.615850e-47 |
| Msa0639290 | Msa1183450 | 0.821634 | 3.636944e-53 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0639290 | MtrunA17_Chr7g0263251 | 100.000 | 105 | 0 | 0 | 1 | 105 | 1 | 105 | 1.24e-71 | 208 |
| Msa0639290 | MtrunA17_Chr4g0050721 | 100.000 | 105 | 0 | 0 | 1 | 105 | 1 | 105 | 1.24e-71 | 208 |
| Msa0639290 | MtrunA17_Chr2g0278691 | 100.000 | 105 | 0 | 0 | 1 | 105 | 1 | 105 | 1.24e-71 | 208 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0639290 | AT3G23390.1 | 92.381 | 105 | 8 | 0 | 1 | 105 | 1 | 105 | 1.05e-66 | 196 |
| Msa0639290 | AT4G14320.1 | 92.381 | 105 | 8 | 0 | 1 | 105 | 1 | 105 | 1.05e-66 | 196 |
| Msa0639290 | AT4G14320.2 | 91.398 | 93 | 8 | 0 | 1 | 93 | 1 | 93 | 3.44e-57 | 174 |
Find 37 sgRNAs with CRISPR-Local
Find 69 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAAGTTACCCAATACAAAA+AGG | 0.271604 | 4_3:+34954932 | Msa0639290:CDS |
| TGTTTCACAACACGCAATTA+AGG | 0.365888 | 4_3:+34955207 | Msa0639290:CDS |
| CAAACCCGTCTTTCACAAAA+AGG | 0.369511 | 4_3:+34955025 | Msa0639290:CDS |
| TGAGTTACTATGAAAAGAAC+AGG | 0.384155 | 4_3:-34955656 | None:intergenic |
| AGGTGTGGTTTGAGATCGGC+TGG | 0.393259 | 4_3:-34954721 | None:intergenic |
| GTTCTAATATTTCTAATGAA+TGG | 0.395258 | 4_3:+34955470 | Msa0639290:three_prime_UTR |
| TAAAGATTCCATCGCTGCTC+AGG | 0.399194 | 4_3:+34954956 | Msa0639290:CDS |
| CGTTATGACCGCAAACAATC+TGG | 0.415551 | 4_3:+34954987 | Msa0639290:CDS |
| TCACCGAGTGCCGCTAAACT+AGG | 0.418604 | 4_3:-34955566 | None:intergenic |
| ATTACAAGAAATGAAAGTAT+TGG | 0.423052 | 4_3:-34955614 | None:intergenic |
| TTCTGTGATCTTGATTATAG+TGG | 0.446266 | 4_3:+34955589 | Msa0639290:three_prime_UTR |
| GTATTGGGTAACTTTGTGTA+AGG | 0.453756 | 4_3:-34954925 | None:intergenic |
| CACCATAACCAGATTGTTTG+CGG | 0.454458 | 4_3:-34954995 | None:intergenic |
| GACCGCAAACAATCTGGTTA+TGG | 0.454865 | 4_3:+34954993 | Msa0639290:CDS |
| AGGTGCAAGCACTTTGAGAT+TGG | 0.462716 | 4_3:+34955311 | Msa0639290:CDS |
| TGCAAGCACTTTGAGATTGG+TGG | 0.497179 | 4_3:+34955314 | Msa0639290:CDS |
| CCGATCTCAAACCACACCTC+TGG | 0.506565 | 4_3:+34954725 | Msa0639290:five_prime_UTR |
| AAACCACACCTCTGGAACAA+TGG | 0.521072 | 4_3:+34954733 | Msa0639290:exon |
| AACCCTAGTTTAGCGGCACT+CGG | 0.525802 | 4_3:+34955563 | Msa0639290:three_prime_UTR |
| CCAGAGGTGTGGTTTGAGAT+CGG | 0.530019 | 4_3:-34954725 | None:intergenic |
| TTACCATTGTTCCAGAGGTG+TGG | 0.530390 | 4_3:-34954736 | None:intergenic |
| CGCAAACAATCTGGTTATGG+TGG | 0.541862 | 4_3:+34954996 | Msa0639290:CDS |
| AGTTGAGGAGGAAGCAGAGT+CGG | 0.545736 | 4_3:-34954688 | None:intergenic |
| CACCGAGTGCCGCTAAACTA+GGG | 0.548556 | 4_3:-34955565 | None:intergenic |
| TGAGATTGGTGGCGACAAGA+AGG | 0.552379 | 4_3:+34955325 | Msa0639290:CDS |
| GAGATTGGTGGCGACAAGAA+GGG | 0.552573 | 4_3:+34955326 | Msa0639290:CDS |
| TTATTGGAACCCTAGTTTAG+CGG | 0.557688 | 4_3:+34955556 | Msa0639290:three_prime_UTR |
| GGTGGCGACAAGAAGGGAAA+AGG | 0.559082 | 4_3:+34955332 | Msa0639290:CDS |
| GTAGTTTACCATTGTTCCAG+AGG | 0.595371 | 4_3:-34954741 | None:intergenic |
| CTACTAAGAAAATTGTGTTG+AGG | 0.599248 | 4_3:+34955161 | Msa0639290:CDS |
| AAAGATTCCATCGCTGCTCA+GGG | 0.607025 | 4_3:+34954957 | Msa0639290:CDS |
| GAAAACCTACTGCAAAAGCA+AGG | 0.613372 | 4_3:+34954887 | Msa0639290:CDS |
| GTGTTGAGGCTTCAGTGTCA+AGG | 0.618711 | 4_3:+34955175 | Msa0639290:CDS |
| GGGCAAACGAAGAGTTGAGG+AGG | 0.651172 | 4_3:-34954700 | None:intergenic |
| GCTGGGCAAACGAAGAGTTG+AGG | 0.677888 | 4_3:-34954703 | None:intergenic |
| GGTGTGGTTTGAGATCGGCT+GGG | 0.686032 | 4_3:-34954720 | None:intergenic |
| GAGTTACTATGAAAAGAACA+GGG | 0.751160 | 4_3:-34955655 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAAATGAAATTGTTGATAA+TGG | - | chr4_3:34954803-34954822 | None:intergenic | 15.0% |
| !!! | AATTCAATTTTTGTTGTTAT+AGG | + | chr4_3:34954845-34954864 | Msa0639290:intron | 15.0% |
| !! | AAAATTAAAAATCGAAAGAT+GGG | - | chr4_3:34955422-34955441 | None:intergenic | 15.0% |
| !! | ATTTCTTGTAATGAAAAAAA+TGG | + | chr4_3:34955625-34955644 | Msa0639290:three_prime_UTR | 15.0% |
| !! | ATCAAATTAAGAAAAACAGA+AGG | - | chr4_3:34955078-34955097 | None:intergenic | 20.0% |
| !! | CAAAATTAAAAATCGAAAGA+TGG | - | chr4_3:34955423-34955442 | None:intergenic | 20.0% |
| !!! | GTTCTAATATTTCTAATGAA+TGG | + | chr4_3:34955470-34955489 | Msa0639290:three_prime_UTR | 20.0% |
| !! | ATAAAAAAGTAAGAACATGA+TGG | - | chr4_3:34955526-34955545 | None:intergenic | 20.0% |
| !!! | TTTTATGCTATTTGCTTTAT+TGG | + | chr4_3:34955540-34955559 | Msa0639290:three_prime_UTR | 20.0% |
| !!! | ATTACAAGAAATGAAAGTAT+TGG | - | chr4_3:34955617-34955636 | None:intergenic | 20.0% |
| ! | AAAGTTACCCAATACAAAAA+GGG | + | chr4_3:34954933-34954952 | Msa0639290:CDS | 25.0% |
| !! | ATCTTTACCCTTTTTGTATT+GGG | - | chr4_3:34954943-34954962 | None:intergenic | 25.0% |
| !! | AATCTTTACCCTTTTTGTAT+TGG | - | chr4_3:34954944-34954963 | None:intergenic | 25.0% |
| ! | TATTGTTGTGTGTTTGAATT+AGG | + | chr4_3:34955132-34955151 | Msa0639290:intron | 25.0% |
| !!! | TGTGTAATTTGTTCTGATTT+TGG | + | chr4_3:34955249-34955268 | Msa0639290:intron | 25.0% |
| !!! | GTGTAATTTGTTCTGATTTT+GGG | + | chr4_3:34955250-34955269 | Msa0639290:intron | 25.0% |
| CAAAGTTACCCAATACAAAA+AGG | + | chr4_3:34954932-34954951 | Msa0639290:CDS | 30.0% | |
| ! | TTGTACCTTTTTGTGAAAGA+CGG | - | chr4_3:34955033-34955052 | None:intergenic | 30.0% |
| AAACAGAAGGTAAAGACTTA+AGG | - | chr4_3:34955065-34955084 | None:intergenic | 30.0% | |
| CTACTAAGAAAATTGTGTTG+AGG | + | chr4_3:34955161-34955180 | Msa0639290:CDS | 30.0% | |
| ! | AAAAGGAACATCTCTGTTTT+AGG | + | chr4_3:34955349-34955368 | Msa0639290:CDS | 30.0% |
| TTCTGTGATCTTGATTATAG+TGG | + | chr4_3:34955589-34955608 | Msa0639290:three_prime_UTR | 30.0% | |
| GAGTTACTATGAAAAGAACA+GGG | - | chr4_3:34955658-34955677 | None:intergenic | 30.0% | |
| TGAGTTACTATGAAAAGAAC+AGG | - | chr4_3:34955659-34955678 | None:intergenic | 30.0% | |
| ! | TTCTTTTCATAGTAACTCAG+CGG | + | chr4_3:34955660-34955679 | Msa0639290:three_prime_UTR | 30.0% |
| !! | GATAATGGATGAAAGTGTTG+TGG | - | chr4_3:34954788-34954807 | None:intergenic | 35.0% |
| ! | CAGTAGGTTTTCTTTGTCTT+TGG | - | chr4_3:34954879-34954898 | None:intergenic | 35.0% |
| GTATTGGGTAACTTTGTGTA+AGG | - | chr4_3:34954928-34954947 | None:intergenic | 35.0% | |
| ! | TGTACCTTTTTGTGAAAGAC+GGG | - | chr4_3:34955032-34955051 | None:intergenic | 35.0% |
| TGTTTCACAACACGCAATTA+AGG | + | chr4_3:34955207-34955226 | Msa0639290:CDS | 35.0% | |
| !! | GTTTTTGTTTGTGTTTGCAG+AGG | + | chr4_3:34955291-34955310 | Msa0639290:intron | 35.0% |
| TTATTGGAACCCTAGTTTAG+CGG | + | chr4_3:34955556-34955575 | Msa0639290:three_prime_UTR | 35.0% | |
| GTAGTTTACCATTGTTCCAG+AGG | - | chr4_3:34954744-34954763 | None:intergenic | 40.0% | |
| TGTTGTGGAAGGTTAGATGA+GGG | - | chr4_3:34954773-34954792 | None:intergenic | 40.0% | |
| !! | ATGGATGAAAGTGTTGTGGA+AGG | - | chr4_3:34954784-34954803 | None:intergenic | 40.0% |
| GAAAACCTACTGCAAAAGCA+AGG | + | chr4_3:34954887-34954906 | Msa0639290:CDS | 40.0% | |
| CACCATAACCAGATTGTTTG+CGG | - | chr4_3:34954998-34955017 | None:intergenic | 40.0% | |
| !! | CTTTTTGTGAAAGACGGGTT+TGG | - | chr4_3:34955027-34955046 | None:intergenic | 40.0% |
| CAAACCCGTCTTTCACAAAA+AGG | + | chr4_3:34955025-34955044 | Msa0639290:CDS | 40.0% | |
| !!! | TGTTCTGATTTTGGGTTCTG+TGG | + | chr4_3:34955258-34955277 | Msa0639290:intron | 40.0% |
| !!! | GTTCTGATTTTGGGTTCTGT+GGG | + | chr4_3:34955259-34955278 | Msa0639290:intron | 40.0% |
| !!! | ATTTTGGGTTCTGTGGGTAA+TGG | + | chr4_3:34955265-34955284 | Msa0639290:intron | 40.0% |
| !!! | TTTTGGGTTCTGTGGGTAAT+GGG | + | chr4_3:34955266-34955285 | Msa0639290:intron | 40.0% |
| !! | AGGAACATCTCTGTTTTAGG+TGG | + | chr4_3:34955352-34955371 | Msa0639290:exon | 40.0% |
| !! | AAACCACACCTCTGGAACAA+TGG | + | chr4_3:34954733-34954752 | Msa0639290:exon | 45.0% |
| TTACCATTGTTCCAGAGGTG+TGG | - | chr4_3:34954739-34954758 | None:intergenic | 45.0% | |
| GTGTTGTGGAAGGTTAGATG+AGG | - | chr4_3:34954774-34954793 | None:intergenic | 45.0% | |
| TAAAGATTCCATCGCTGCTC+AGG | + | chr4_3:34954956-34954975 | Msa0639290:CDS | 45.0% | |
| AAAGATTCCATCGCTGCTCA+GGG | + | chr4_3:34954957-34954976 | Msa0639290:CDS | 45.0% | |
| CGTTATGACCGCAAACAATC+TGG | + | chr4_3:34954987-34955006 | Msa0639290:CDS | 45.0% | |
| GACCGCAAACAATCTGGTTA+TGG | + | chr4_3:34954993-34955012 | Msa0639290:CDS | 45.0% | |
| CGCAAACAATCTGGTTATGG+TGG | + | chr4_3:34954996-34955015 | Msa0639290:CDS | 45.0% | |
| !! | AGGTGCAAGCACTTTGAGAT+TGG | + | chr4_3:34955311-34955330 | Msa0639290:CDS | 45.0% |
| !! | TGCAAGCACTTTGAGATTGG+TGG | + | chr4_3:34955314-34955333 | Msa0639290:CDS | 45.0% |
| ! | CCAGAGGTGTGGTTTGAGAT+CGG | - | chr4_3:34954728-34954747 | None:intergenic | 50.0% |
| !! | GCACTCCTTGCTTTTGCAGT+AGG | - | chr4_3:34954895-34954914 | None:intergenic | 50.0% |
| GTGTTGAGGCTTCAGTGTCA+AGG | + | chr4_3:34955175-34955194 | Msa0639290:CDS | 50.0% | |
| !! | TGAGATTGGTGGCGACAAGA+AGG | + | chr4_3:34955325-34955344 | Msa0639290:CDS | 50.0% |
| !! | GAGATTGGTGGCGACAAGAA+GGG | + | chr4_3:34955326-34955345 | Msa0639290:CDS | 50.0% |
| AACCCTAGTTTAGCGGCACT+CGG | + | chr4_3:34955563-34955582 | Msa0639290:three_prime_UTR | 50.0% | |
| GGGCAAACGAAGAGTTGAGG+AGG | - | chr4_3:34954703-34954722 | None:intergenic | 55.0% | |
| GCTGGGCAAACGAAGAGTTG+AGG | - | chr4_3:34954706-34954725 | None:intergenic | 55.0% | |
| ! | GGTGTGGTTTGAGATCGGCT+GGG | - | chr4_3:34954723-34954742 | None:intergenic | 55.0% |
| ! | AGGTGTGGTTTGAGATCGGC+TGG | - | chr4_3:34954724-34954743 | None:intergenic | 55.0% |
| CCGATCTCAAACCACACCTC+TGG | + | chr4_3:34954725-34954744 | Msa0639290:five_prime_UTR | 55.0% | |
| ! | ACGTTTTCCCTGAGCAGCGA+TGG | - | chr4_3:34954967-34954986 | None:intergenic | 55.0% |
| GGTGGCGACAAGAAGGGAAA+AGG | + | chr4_3:34955332-34955351 | Msa0639290:CDS | 55.0% | |
| ! | CACCGAGTGCCGCTAAACTA+GGG | - | chr4_3:34955568-34955587 | None:intergenic | 55.0% |
| ! | TCACCGAGTGCCGCTAAACT+AGG | - | chr4_3:34955569-34955588 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 34954690 | 34955711 | 34954690 | ID=Msa0639290;Name=Msa0639290 |
| chr4_3 | mRNA | 34954690 | 34955711 | 34954690 | ID=Msa0639290-mRNA-1;Parent=Msa0639290;Name=Msa0639290-mRNA-1;_AED=0.00;_eAED=0.00;_QI=62|1|1|1|1|1|4|341|105 |
| chr4_3 | exon | 34954690 | 34954754 | 34954690 | ID=Msa0639290-mRNA-1:exon:8171;Parent=Msa0639290-mRNA-1 |
| chr4_3 | exon | 34954867 | 34955046 | 34954867 | ID=Msa0639290-mRNA-1:exon:8172;Parent=Msa0639290-mRNA-1 |
| chr4_3 | exon | 34955154 | 34955228 | 34955154 | ID=Msa0639290-mRNA-1:exon:8173;Parent=Msa0639290-mRNA-1 |
| chr4_3 | exon | 34955311 | 34955711 | 34955311 | ID=Msa0639290-mRNA-1:exon:8174;Parent=Msa0639290-mRNA-1 |
| chr4_3 | five_prime_UTR | 34954690 | 34954751 | 34954690 | ID=Msa0639290-mRNA-1:five_prime_utr;Parent=Msa0639290-mRNA-1 |
| chr4_3 | CDS | 34954752 | 34954754 | 34954752 | ID=Msa0639290-mRNA-1:cds;Parent=Msa0639290-mRNA-1 |
| chr4_3 | CDS | 34954867 | 34955046 | 34954867 | ID=Msa0639290-mRNA-1:cds;Parent=Msa0639290-mRNA-1 |
| chr4_3 | CDS | 34955154 | 34955228 | 34955154 | ID=Msa0639290-mRNA-1:cds;Parent=Msa0639290-mRNA-1 |
| chr4_3 | CDS | 34955311 | 34955370 | 34955311 | ID=Msa0639290-mRNA-1:cds;Parent=Msa0639290-mRNA-1 |
| chr4_3 | three_prime_UTR | 34955371 | 34955711 | 34955371 | ID=Msa0639290-mRNA-1:three_prime_utr;Parent=Msa0639290-mRNA-1 |
| Gene Sequence |
| Protein sequence |
