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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0376610 | KEH26293.1 | 66.047 | 215 | 33 | 1 | 1 | 175 | 1 | 215 | 2.17e-91 | 280 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0376610 | A0A072UB45 | 66.047 | 215 | 33 | 1 | 1 | 175 | 1 | 215 | 1.04e-91 | 280 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0376610 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0376610 | MtrunA17_Chr8g0363841 | 51.628 | 215 | 60 | 2 | 1 | 175 | 1 | 211 | 5.77e-69 | 221 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGGAGATATTTAGGAGAAAA+AGG | 0.222726 | 3_1:-76703918 | Msa0376610:intron |
| TTGACCAAGGAAAATATCTA+TGG | 0.271392 | 3_1:+76704308 | None:intergenic |
| CCATCTTGAAGCCATGTTCT+TGG | 0.280191 | 3_1:+76704250 | None:intergenic |
| GTTATGGTTATGTTGTCTTC+AGG | 0.304966 | 3_1:-76703745 | None:intergenic |
| ATTGTTCTTAAACCCTTGTT+TGG | 0.337062 | 3_1:+76704149 | None:intergenic |
| GTCATGTTCTACTATTGTTA+TGG | 0.343318 | 3_1:-76703761 | Msa0376610:CDS |
| CAGGGGATTGATTAAAGATT+GGG | 0.387768 | 3_1:+76703805 | None:intergenic |
| GCAGGGGATTGATTAAAGAT+TGG | 0.402047 | 3_1:+76703804 | None:intergenic |
| TCACCTACGATTTCTTCTTC+CGG | 0.408451 | 3_1:+76704123 | None:intergenic |
| CAATTTAATGTTAGCAAGGA+TGG | 0.448703 | 3_1:-76704051 | Msa0376610:CDS |
| GAAAAGATTAAATTAATTCA+AGG | 0.477387 | 3_1:-76703836 | Msa0376610:CDS |
| CAAGAACATGGCTTCAAGAT+GGG | 0.500638 | 3_1:-76704249 | Msa0376610:CDS |
| CCAAGAACATGGCTTCAAGA+TGG | 0.507821 | 3_1:-76704250 | Msa0376610:CDS |
| CTTATCAAAGGGCTGATTCG+AGG | 0.508393 | 3_1:-76704095 | Msa0376610:CDS |
| AGGGTTTAAGAACAATGAAC+CGG | 0.509978 | 3_1:-76704142 | Msa0376610:CDS |
| GCAGGTGGATTTGATAAGCT+TGG | 0.516516 | 3_1:-76703896 | Msa0376610:CDS |
| TAGGTGAAATTGCTTATCAA+AGG | 0.520452 | 3_1:-76704107 | Msa0376610:CDS |
| ATGTTAGCAAGGATGGAGAA+TGG | 0.532233 | 3_1:-76704044 | Msa0376610:CDS |
| GATTATTACCGTTCCAAACA+AGG | 0.544182 | 3_1:-76704162 | Msa0376610:CDS |
| AGGTGAAATTGCTTATCAAA+GGG | 0.546039 | 3_1:-76704106 | Msa0376610:CDS |
| CGTGCAATTTAATGTTAGCA+AGG | 0.557319 | 3_1:-76704055 | Msa0376610:CDS |
| GCTCGAGCGGCACAAAAGCA+TGG | 0.572611 | 3_1:+76703992 | None:intergenic |
| TCTTAAACCCTTGTTTGGAA+CGG | 0.574499 | 3_1:+76704154 | None:intergenic |
| TGGTCAATTTGTGCATAGCA+AGG | 0.578717 | 3_1:-76704292 | Msa0376610:CDS |
| TGACCAAGGAAAATATCTAT+GGG | 0.581046 | 3_1:+76704309 | None:intergenic |
| ATTATTACCGTTCCAAACAA+GGG | 0.591948 | 3_1:-76704161 | Msa0376610:CDS |
| AAGATTAAATTAATTCAAGG+TGG | 0.626279 | 3_1:-76703833 | Msa0376610:CDS |
| TATAACTTATACCAAGAACA+TGG | 0.642684 | 3_1:-76704261 | Msa0376610:CDS |
| TGCTATGCACAAATTGACCA+AGG | 0.646093 | 3_1:+76704295 | None:intergenic |
| GAACCGGAAGAAGAAATCGT+AGG | 0.675961 | 3_1:-76704126 | Msa0376610:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTGAATTAATTTAATCTTTT+CGG | + | chr3_1:76704261-76704280 | None:intergenic | 10.0% |
| !! | GAAAAGATTAAATTAATTCA+AGG | - | chr3_1:76704260-76704279 | Msa0376610:CDS | 15.0% |
| !! | ATCAGAAAGTTACTAATATT+TGG | - | chr3_1:76704158-76704177 | Msa0376610:CDS | 20.0% |
| !! | ACTAATATTTGGAGATATTT+AGG | - | chr3_1:76704169-76704188 | Msa0376610:CDS | 20.0% |
| !! | AAGATTAAATTAATTCAAGG+TGG | - | chr3_1:76704263-76704282 | Msa0376610:CDS | 20.0% |
| ! | TATAACTTATACCAAGAACA+TGG | - | chr3_1:76703835-76703854 | Msa0376610:CDS | 25.0% |
| !!! | ATGGGTTTTAGTGTAAAAAA+AGG | - | chr3_1:76703865-76703884 | Msa0376610:CDS | 25.0% |
| !!! | TGGGTTTTAGTGTAAAAAAA+GGG | - | chr3_1:76703866-76703885 | Msa0376610:CDS | 25.0% |
| ! | TTTGTTACTCTCTATAAGAA+TGG | - | chr3_1:76704134-76704153 | Msa0376610:CDS | 25.0% |
| ! | AATCCCATAGATATTTTCCT+TGG | - | chr3_1:76703784-76703803 | Msa0376610:CDS | 30.0% |
| TGACCAAGGAAAATATCTAT+GGG | + | chr3_1:76703790-76703809 | None:intergenic | 30.0% | |
| TTGACCAAGGAAAATATCTA+TGG | + | chr3_1:76703791-76703810 | None:intergenic | 30.0% | |
| ATTATTACCGTTCCAAACAA+GGG | - | chr3_1:76703935-76703954 | Msa0376610:intron | 30.0% | |
| ATTGTTCTTAAACCCTTGTT+TGG | + | chr3_1:76703950-76703969 | None:intergenic | 30.0% | |
| TAGGTGAAATTGCTTATCAA+AGG | - | chr3_1:76703989-76704008 | Msa0376610:intron | 30.0% | |
| AGGTGAAATTGCTTATCAAA+GGG | - | chr3_1:76703990-76704009 | Msa0376610:intron | 30.0% | |
| CAATTTAATGTTAGCAAGGA+TGG | - | chr3_1:76704045-76704064 | Msa0376610:CDS | 30.0% | |
| TGGAGATATTTAGGAGAAAA+AGG | - | chr3_1:76704178-76704197 | Msa0376610:CDS | 30.0% | |
| GTCATGTTCTACTATTGTTA+TGG | - | chr3_1:76704335-76704354 | Msa0376610:CDS | 30.0% | |
| GATTATTACCGTTCCAAACA+AGG | - | chr3_1:76703934-76703953 | Msa0376610:intron | 35.0% | |
| ! | TCTTAAACCCTTGTTTGGAA+CGG | + | chr3_1:76703945-76703964 | None:intergenic | 35.0% |
| AGGGTTTAAGAACAATGAAC+CGG | - | chr3_1:76703954-76703973 | Msa0376610:intron | 35.0% | |
| CGTGCAATTTAATGTTAGCA+AGG | - | chr3_1:76704041-76704060 | Msa0376610:CDS | 35.0% | |
| GATATTTAGGAGAAAAAGGC+AGG | - | chr3_1:76704182-76704201 | Msa0376610:CDS | 35.0% | |
| CAGGGGATTGATTAAAGATT+GGG | + | chr3_1:76704294-76704313 | None:intergenic | 35.0% | |
| ! | TTGTGCTTGTCTATTTTGCA+GGG | + | chr3_1:76704312-76704331 | None:intergenic | 35.0% |
| TGCTATGCACAAATTGACCA+AGG | + | chr3_1:76703804-76703823 | None:intergenic | 40.0% | |
| TGGTCAATTTGTGCATAGCA+AGG | - | chr3_1:76703804-76703823 | Msa0376610:CDS | 40.0% | |
| CAAGAACATGGCTTCAAGAT+GGG | - | chr3_1:76703847-76703866 | Msa0376610:CDS | 40.0% | |
| TCACCTACGATTTCTTCTTC+CGG | + | chr3_1:76703976-76703995 | None:intergenic | 40.0% | |
| ATGTTAGCAAGGATGGAGAA+TGG | - | chr3_1:76704052-76704071 | Msa0376610:CDS | 40.0% | |
| AACAAATGTCTTTGCTCGAG+CGG | + | chr3_1:76704120-76704139 | None:intergenic | 40.0% | |
| ATTTAGGAGAAAAAGGCAGG+TGG | - | chr3_1:76704185-76704204 | Msa0376610:CDS | 40.0% | |
| GCAGGGGATTGATTAAAGAT+TGG | + | chr3_1:76704295-76704314 | None:intergenic | 40.0% | |
| ! | TGTGCTTGTCTATTTTGCAG+GGG | + | chr3_1:76704311-76704330 | None:intergenic | 40.0% |
| ! | CTTGTGCTTGTCTATTTTGC+AGG | + | chr3_1:76704313-76704332 | None:intergenic | 40.0% |
| CCATCTTGAAGCCATGTTCT+TGG | + | chr3_1:76703849-76703868 | None:intergenic | 45.0% | |
| CCAAGAACATGGCTTCAAGA+TGG | - | chr3_1:76703846-76703865 | Msa0376610:CDS | 45.0% | |
| GAACCGGAAGAAGAAATCGT+AGG | - | chr3_1:76703970-76703989 | Msa0376610:intron | 45.0% | |
| !! | CTTATCAAAGGGCTGATTCG+AGG | - | chr3_1:76704001-76704020 | Msa0376610:intron | 45.0% |
| ! | GCAGGTGGATTTGATAAGCT+TGG | - | chr3_1:76704200-76704219 | Msa0376610:CDS | 45.0% |
| GCTCGAGCGGCACAAAAGCA+TGG | + | chr3_1:76704107-76704126 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 76703748 | 76704370 | 76703748 | ID=Msa0376610;Name=Msa0376610 |
| chr3_1 | mRNA | 76703748 | 76704370 | 76703748 | ID=Msa0376610-mRNA-1;Parent=Msa0376610;Name=Msa0376610-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|0|0|1|1|0.5|2|0|182 |
| chr3_1 | exon | 76704005 | 76704370 | 76704005 | ID=Msa0376610-mRNA-1:exon:18285;Parent=Msa0376610-mRNA-1 |
| chr3_1 | exon | 76703748 | 76703927 | 76703748 | ID=Msa0376610-mRNA-1:exon:18284;Parent=Msa0376610-mRNA-1 |
| chr3_1 | CDS | 76704005 | 76704370 | 76704005 | ID=Msa0376610-mRNA-1:cds;Parent=Msa0376610-mRNA-1 |
| chr3_1 | CDS | 76703748 | 76703927 | 76703748 | ID=Msa0376610-mRNA-1:cds;Parent=Msa0376610-mRNA-1 |
| Gene Sequence |
| Protein sequence |
