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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0200390 | XP_039687084.1 | 81.148 | 122 | 15 | 1 | 1 | 114 | 1 | 122 | 1.01e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0200390 | G7INX6 | 81.148 | 122 | 15 | 1 | 1 | 114 | 1 | 122 | 4.84e-63 | 197 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0200390 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0200390 | MtrunA17_Chr2g0281511 | 81.148 | 122 | 15 | 1 | 1 | 114 | 1 | 122 | 9.31e-67 | 197 |
| Msa0200390 | MtrunA17_Chr2g0309121 | 77.049 | 122 | 19 | 2 | 1 | 114 | 1 | 121 | 1.80e-60 | 181 |
| Msa0200390 | MtrunA17_Chr3g0081891 | 81.250 | 80 | 7 | 1 | 1 | 72 | 1 | 80 | 1.02e-38 | 124 |
| Msa0200390 | MtrunA17_Chr7g0276661 | 31.579 | 133 | 65 | 3 | 5 | 112 | 36 | 167 | 7.64e-19 | 77.0 |
| Msa0200390 | MtrunA17_Chr5g0430431 | 35.789 | 95 | 54 | 2 | 18 | 108 | 163 | 254 | 5.34e-16 | 71.2 |
| Msa0200390 | MtrunA17_Chr8g0372431 | 28.866 | 97 | 61 | 2 | 24 | 112 | 6 | 102 | 9.40e-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_1:+20381503 | Msa0200390:CDS |
| GAAGTCAATGGGACTGAATT+AGG | 0.177976 | 2_1:+20381444 | Msa0200390:CDS |
| AAAATGTCAATGTTCATTAT+TGG | 0.227491 | 2_1:+20381475 | Msa0200390:CDS |
| TACCGGTTTCTTCATCAAAA+AGG | 0.272684 | 2_1:-20381694 | None:intergenic |
| TGTATGCTACTGTCGTTAAC+TGG | 0.319167 | 2_1:+20381861 | Msa0200390:CDS |
| ATCACAATCATAAGATTTAC+CGG | 0.322905 | 2_1:-20381711 | None:intergenic |
| CGATCAATAATCCTCCTAAT+AGG | 0.349986 | 2_1:+20381837 | Msa0200390:CDS |
| TTTGGATGGAAACAATGTTT+TGG | 0.356448 | 2_1:+20381521 | Msa0200390:CDS |
| ACAGTAGCATACATCCTATT+AGG | 0.371456 | 2_1:-20381851 | None:intergenic |
| GTACGACTTTGTTCTTGAAA+AGG | 0.412286 | 2_1:+20381784 | Msa0200390:CDS |
| AAGTCAATGGGACTGAATTA+GGG | 0.440727 | 2_1:+20381445 | Msa0200390:CDS |
| TACGACTTTGTTCTTGAAAA+GGG | 0.450393 | 2_1:+20381785 | Msa0200390:CDS |
| GAGATTGAAGTTGAAGTCAA+TGG | 0.459103 | 2_1:+20381432 | Msa0200390:CDS |
| GCATGCATCATAAATACATA+GGG | 0.490509 | 2_1:+20381753 | Msa0200390:CDS |
| CTTGAAAAGGGCCTAAAAGT+TGG | 0.495134 | 2_1:+20381797 | Msa0200390:CDS |
| AGCATGCATCATAAATACAT+AGG | 0.495837 | 2_1:+20381752 | Msa0200390:CDS |
| AGATTGAAGTTGAAGTCAAT+GGG | 0.508813 | 2_1:+20381433 | Msa0200390:CDS |
| GTATGCTACTGTCGTTAACT+GGG | 0.553223 | 2_1:+20381862 | Msa0200390:CDS |
| GTAGCATACATCCTATTAGG+AGG | 0.620880 | 2_1:-20381848 | None:intergenic |
| CATGCATCATAAATACATAG+GGG | 0.668603 | 2_1:+20381754 | Msa0200390:CDS |
| ATGCATCATAAATACATAGG+GGG | 0.674005 | 2_1:+20381755 | Msa0200390:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAATGTCAATGTTCATTAT+TGG | + | chr2_1:20381475-20381494 | Msa0200390:CDS | 20.0% |
| !! | TAATGTTACTGCTTCTATTT+TGG | + | chr2_1:20381503-20381522 | Msa0200390:CDS | 25.0% |
| ! | ATCACAATCATAAGATTTAC+CGG | - | chr2_1:20381714-20381733 | None:intergenic | 25.0% |
| !! | AAATAACGTTACCAACTTTT+AGG | - | chr2_1:20381811-20381830 | None:intergenic | 25.0% |
| AGATTGAAGTTGAAGTCAAT+GGG | + | chr2_1:20381433-20381452 | Msa0200390:CDS | 30.0% | |
| ! | TTTGGATGGAAACAATGTTT+TGG | + | chr2_1:20381521-20381540 | Msa0200390:CDS | 30.0% |
| AGCATGCATCATAAATACAT+AGG | + | chr2_1:20381752-20381771 | Msa0200390:CDS | 30.0% | |
| GCATGCATCATAAATACATA+GGG | + | chr2_1:20381753-20381772 | Msa0200390:CDS | 30.0% | |
| CATGCATCATAAATACATAG+GGG | + | chr2_1:20381754-20381773 | Msa0200390:CDS | 30.0% | |
| ATGCATCATAAATACATAGG+GGG | + | chr2_1:20381755-20381774 | Msa0200390:CDS | 30.0% | |
| TACGACTTTGTTCTTGAAAA+GGG | + | chr2_1:20381785-20381804 | Msa0200390:CDS | 30.0% | |
| GAGATTGAAGTTGAAGTCAA+TGG | + | chr2_1:20381432-20381451 | Msa0200390:CDS | 35.0% | |
| AAGTCAATGGGACTGAATTA+GGG | + | chr2_1:20381445-20381464 | Msa0200390:CDS | 35.0% | |
| !! | GTTACTGCTTCTATTTTGGA+TGG | + | chr2_1:20381507-20381526 | Msa0200390:CDS | 35.0% |
| !!! | GGAAACAATGTTTTGGTTAG+TGG | + | chr2_1:20381528-20381547 | Msa0200390:intron | 35.0% |
| ! | CTCCTTTTTGATGAAGAAAC+CGG | + | chr2_1:20381692-20381711 | Msa0200390:CDS | 35.0% |
| !! | TACCGGTTTCTTCATCAAAA+AGG | - | chr2_1:20381697-20381716 | None:intergenic | 35.0% |
| GTACGACTTTGTTCTTGAAA+AGG | + | chr2_1:20381784-20381803 | Msa0200390:CDS | 35.0% | |
| CGATCAATAATCCTCCTAAT+AGG | + | chr2_1:20381837-20381856 | Msa0200390:CDS | 35.0% | |
| ACAGTAGCATACATCCTATT+AGG | - | chr2_1:20381854-20381873 | None:intergenic | 35.0% | |
| GAAGTCAATGGGACTGAATT+AGG | + | chr2_1:20381444-20381463 | Msa0200390:CDS | 40.0% | |
| CCATTCTCAACAACATGTCA+AGG | - | chr2_1:20381647-20381666 | None:intergenic | 40.0% | |
| CCTTGACATGTTGTTGAGAA+TGG | + | chr2_1:20381644-20381663 | Msa0200390:intron | 40.0% | |
| CATCATAAATACATAGGGGG+AGG | + | chr2_1:20381758-20381777 | Msa0200390:CDS | 40.0% | |
| ATAAATACATAGGGGGAGGA+TGG | + | chr2_1:20381762-20381781 | Msa0200390:CDS | 40.0% | |
| CTTGAAAAGGGCCTAAAAGT+TGG | + | chr2_1:20381797-20381816 | Msa0200390:CDS | 40.0% | |
| GTAGCATACATCCTATTAGG+AGG | - | chr2_1:20381851-20381870 | None:intergenic | 40.0% | |
| TGTATGCTACTGTCGTTAAC+TGG | + | chr2_1:20381861-20381880 | Msa0200390:CDS | 40.0% | |
| GTATGCTACTGTCGTTAACT+GGG | + | chr2_1:20381862-20381881 | Msa0200390:CDS | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 20381421 | 20381886 | 20381421 | ID=Msa0200390;Name=Msa0200390 |
| chr2_1 | mRNA | 20381421 | 20381886 | 20381421 | ID=Msa0200390-mRNA-1;Parent=Msa0200390;Name=Msa0200390-mRNA-1;_AED=0.05;_eAED=0.05;_QI=5|0|0|1|0|0|2|0|114 |
| chr2_1 | exon | 20381421 | 20381542 | 20381421 | ID=Msa0200390-mRNA-1:exon:8391;Parent=Msa0200390-mRNA-1 |
| chr2_1 | exon | 20381662 | 20381886 | 20381662 | ID=Msa0200390-mRNA-1:exon:8392;Parent=Msa0200390-mRNA-1 |
| chr2_1 | five_prime_UTR | 20381421 | 20381425 | 20381421 | ID=Msa0200390-mRNA-1:five_prime_utr;Parent=Msa0200390-mRNA-1 |
| chr2_1 | CDS | 20381426 | 20381542 | 20381426 | ID=Msa0200390-mRNA-1:cds;Parent=Msa0200390-mRNA-1 |
| chr2_1 | CDS | 20381662 | 20381886 | 20381662 | ID=Msa0200390-mRNA-1:cds;Parent=Msa0200390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
