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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0281220 | XP_039687084.1 | 81.148 | 122 | 15 | 1 | 1 | 114 | 1 | 122 | 1.05e-62 | 197 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0281220 | G7INX6 | 81.148 | 122 | 15 | 1 | 1 | 114 | 1 | 122 | 5.04e-63 | 197 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0281220 | TF | B3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0281220 | MtrunA17_Chr2g0281511 | 81.148 | 122 | 15 | 1 | 1 | 114 | 1 | 122 | 9.70e-67 | 197 |
| Msa0281220 | MtrunA17_Chr2g0309121 | 77.049 | 122 | 19 | 2 | 1 | 114 | 1 | 121 | 1.88e-60 | 181 |
| Msa0281220 | MtrunA17_Chr3g0081891 | 81.250 | 80 | 7 | 1 | 1 | 72 | 1 | 80 | 1.06e-38 | 124 |
| Msa0281220 | MtrunA17_Chr7g0276661 | 31.579 | 133 | 65 | 3 | 5 | 112 | 36 | 167 | 7.91e-19 | 77.0 |
| Msa0281220 | MtrunA17_Chr5g0430431 | 35.789 | 95 | 54 | 2 | 18 | 108 | 163 | 254 | 5.52e-16 | 71.2 |
| Msa0281220 | MtrunA17_Chr8g0372431 | 28.866 | 97 | 61 | 2 | 24 | 112 | 6 | 102 | 9.68e-11 | 54.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATGTTACTGCTTCTATTT+TGG | 0.123735 | 2_3:-16505287 | Msa0281220:CDS |
| GAAGTCAATGGGACTGAATT+AGG | 0.177976 | 2_3:-16505346 | Msa0281220:CDS |
| AAAATGTCAATGTTCATTAT+TGG | 0.227491 | 2_3:-16505315 | Msa0281220:CDS |
| TACCGGTTTCTTCATCAAAA+AGG | 0.272684 | 2_3:+16505096 | None:intergenic |
| TGTATGCTACTGTCGTTAAC+TGG | 0.319167 | 2_3:-16504929 | Msa0281220:CDS |
| ATCACAATCATAAGATTTAC+CGG | 0.322905 | 2_3:+16505079 | None:intergenic |
| CGATCAATAATCCTCCTAAT+AGG | 0.349986 | 2_3:-16504953 | Msa0281220:CDS |
| TTTGGATGGAAACAATGTTT+TGG | 0.356448 | 2_3:-16505269 | Msa0281220:intron |
| ACAGTAGCATACATCCTATT+AGG | 0.371456 | 2_3:+16504939 | None:intergenic |
| GTACGACTTTGTTCTTGAAA+AGG | 0.412286 | 2_3:-16505006 | Msa0281220:CDS |
| AAGTCAATGGGACTGAATTA+GGG | 0.440727 | 2_3:-16505345 | Msa0281220:CDS |
| TACGACTTTGTTCTTGAAAA+GGG | 0.450393 | 2_3:-16505005 | Msa0281220:CDS |
| GAGATTGAAGTTGAAGTCAA+TGG | 0.459103 | 2_3:-16505358 | Msa0281220:CDS |
| GCATGCATCATAAATACATA+GGG | 0.490509 | 2_3:-16505037 | Msa0281220:CDS |
| CTTGAAAAGGGCCTAAAAGT+TGG | 0.495134 | 2_3:-16504993 | Msa0281220:CDS |
| AGCATGCATCATAAATACAT+AGG | 0.495837 | 2_3:-16505038 | Msa0281220:CDS |
| AGATTGAAGTTGAAGTCAAT+GGG | 0.508813 | 2_3:-16505357 | Msa0281220:CDS |
| GTATGCTACTGTCGTTAACT+GGG | 0.553223 | 2_3:-16504928 | Msa0281220:CDS |
| GTAGCATACATCCTATTAGG+AGG | 0.620880 | 2_3:+16504942 | None:intergenic |
| CATGCATCATAAATACATAG+GGG | 0.668603 | 2_3:-16505036 | Msa0281220:CDS |
| ATGCATCATAAATACATAGG+GGG | 0.674005 | 2_3:-16505035 | Msa0281220:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAATGTCAATGTTCATTAT+TGG | - | chr2_3:16504972-16504991 | Msa0281220:CDS | 20.0% |
| !! | TAATGTTACTGCTTCTATTT+TGG | - | chr2_3:16505000-16505019 | Msa0281220:CDS | 25.0% |
| ! | ATCACAATCATAAGATTTAC+CGG | + | chr2_3:16505211-16505230 | None:intergenic | 25.0% |
| !! | AAATAACGTTACCAACTTTT+AGG | + | chr2_3:16505308-16505327 | None:intergenic | 25.0% |
| AGATTGAAGTTGAAGTCAAT+GGG | - | chr2_3:16504930-16504949 | Msa0281220:CDS | 30.0% | |
| ! | TTTGGATGGAAACAATGTTT+TGG | - | chr2_3:16505018-16505037 | Msa0281220:CDS | 30.0% |
| AGCATGCATCATAAATACAT+AGG | - | chr2_3:16505249-16505268 | Msa0281220:intron | 30.0% | |
| GCATGCATCATAAATACATA+GGG | - | chr2_3:16505250-16505269 | Msa0281220:intron | 30.0% | |
| CATGCATCATAAATACATAG+GGG | - | chr2_3:16505251-16505270 | Msa0281220:intron | 30.0% | |
| ATGCATCATAAATACATAGG+GGG | - | chr2_3:16505252-16505271 | Msa0281220:intron | 30.0% | |
| TACGACTTTGTTCTTGAAAA+GGG | - | chr2_3:16505282-16505301 | Msa0281220:CDS | 30.0% | |
| GAGATTGAAGTTGAAGTCAA+TGG | - | chr2_3:16504929-16504948 | Msa0281220:CDS | 35.0% | |
| AAGTCAATGGGACTGAATTA+GGG | - | chr2_3:16504942-16504961 | Msa0281220:CDS | 35.0% | |
| !! | GTTACTGCTTCTATTTTGGA+TGG | - | chr2_3:16505004-16505023 | Msa0281220:CDS | 35.0% |
| !!! | GGAAACAATGTTTTGGTTAG+TGG | - | chr2_3:16505025-16505044 | Msa0281220:CDS | 35.0% |
| ! | CTCCTTTTTGATGAAGAAAC+CGG | - | chr2_3:16505189-16505208 | Msa0281220:intron | 35.0% |
| !! | TACCGGTTTCTTCATCAAAA+AGG | + | chr2_3:16505194-16505213 | None:intergenic | 35.0% |
| GTACGACTTTGTTCTTGAAA+AGG | - | chr2_3:16505281-16505300 | Msa0281220:CDS | 35.0% | |
| CGATCAATAATCCTCCTAAT+AGG | - | chr2_3:16505334-16505353 | Msa0281220:CDS | 35.0% | |
| ACAGTAGCATACATCCTATT+AGG | + | chr2_3:16505351-16505370 | None:intergenic | 35.0% | |
| GAAGTCAATGGGACTGAATT+AGG | - | chr2_3:16504941-16504960 | Msa0281220:CDS | 40.0% | |
| CATCATAAATACATAGGGGG+AGG | - | chr2_3:16505255-16505274 | Msa0281220:intron | 40.0% | |
| ATAAATACATAGGGGGAGGA+TGG | - | chr2_3:16505259-16505278 | Msa0281220:intron | 40.0% | |
| CTTGAAAAGGGCCTAAAAGT+TGG | - | chr2_3:16505294-16505313 | Msa0281220:CDS | 40.0% | |
| GTAGCATACATCCTATTAGG+AGG | + | chr2_3:16505348-16505367 | None:intergenic | 40.0% | |
| TGTATGCTACTGTCGTTAAC+TGG | - | chr2_3:16505358-16505377 | Msa0281220:CDS | 40.0% | |
| GTATGCTACTGTCGTTAACT+GGG | - | chr2_3:16505359-16505378 | Msa0281220:CDS | 40.0% | |
| CCATTCTCAGCAACATGTCA+AGG | + | chr2_3:16505144-16505163 | None:intergenic | 45.0% | |
| CCTTGACATGTTGCTGAGAA+TGG | - | chr2_3:16505141-16505160 | Msa0281220:intron | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 16504923 | 16505386 | 16504923 | ID=Msa0281220;Name=Msa0281220 |
| chr2_3 | mRNA | 16504923 | 16505386 | 16504923 | ID=Msa0281220-mRNA-1;Parent=Msa0281220;Name=Msa0281220-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0|0|0|1|1|1|2|0|114 |
| chr2_3 | exon | 16505270 | 16505386 | 16505270 | ID=Msa0281220-mRNA-1:exon:6821;Parent=Msa0281220-mRNA-1 |
| chr2_3 | exon | 16504923 | 16505150 | 16504923 | ID=Msa0281220-mRNA-1:exon:6820;Parent=Msa0281220-mRNA-1 |
| chr2_3 | CDS | 16505270 | 16505386 | 16505270 | ID=Msa0281220-mRNA-1:cds;Parent=Msa0281220-mRNA-1 |
| chr2_3 | CDS | 16504923 | 16505150 | 16504923 | ID=Msa0281220-mRNA-1:cds;Parent=Msa0281220-mRNA-1 |
| Gene Sequence |
| Protein sequence |
