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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0374720 | GAU43525.1 | 70.930 | 86 | 24 | 1 | 5 | 89 | 163 | 248 | 4.03e-34 | 127 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0374720 | A0A2Z6P5U6 | 70.930 | 86 | 24 | 1 | 5 | 89 | 163 | 248 | 1.93e-34 | 127 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0374720 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0374720 | MtrunA17_Chr3g0077431 | 66.667 | 87 | 27 | 1 | 5 | 89 | 115 | 201 | 5.95e-38 | 125 |
| Msa0374720 | MtrunA17_Chr3g0077451 | 66.667 | 87 | 27 | 1 | 5 | 89 | 154 | 240 | 2.65e-37 | 125 |
| Msa0374720 | MtrunA17_Chr5g0429931 | 65.116 | 86 | 29 | 1 | 5 | 89 | 163 | 248 | 6.94e-37 | 124 |
| Msa0374720 | MtrunA17_Chr3g0077421 | 66.279 | 86 | 26 | 1 | 5 | 87 | 115 | 200 | 1.96e-36 | 121 |
| Msa0374720 | MtrunA17_Chr3g0077441 | 66.279 | 86 | 26 | 1 | 5 | 87 | 115 | 200 | 1.96e-36 | 121 |
| Msa0374720 | MtrunA17_Chr3g0077361 | 59.302 | 86 | 34 | 1 | 5 | 89 | 422 | 507 | 1.38e-27 | 103 |
| Msa0374720 | MtrunA17_Chr3g0077361 | 50.000 | 78 | 37 | 2 | 5 | 80 | 187 | 264 | 2.52e-16 | 72.0 |
| Msa0374720 | MtrunA17_Chr3g0077411 | 52.688 | 93 | 36 | 1 | 5 | 89 | 431 | 523 | 2.07e-25 | 97.8 |
| Msa0374720 | MtrunA17_Chr3g0077411 | 44.595 | 74 | 40 | 1 | 5 | 77 | 170 | 243 | 6.62e-14 | 65.1 |
| Msa0374720 | MtrunA17_Chr5g0421921 | 48.837 | 86 | 42 | 2 | 5 | 89 | 30 | 114 | 1.47e-21 | 81.3 |
| Msa0374720 | MtrunA17_Chr5g0421731 | 48.837 | 86 | 42 | 2 | 5 | 89 | 30 | 114 | 1.47e-21 | 81.3 |
| Msa0374720 | MtrunA17_Chr5g0421851 | 48.837 | 86 | 42 | 2 | 5 | 89 | 105 | 189 | 4.01e-20 | 79.7 |
| Msa0374720 | MtrunA17_Chr3g0077461 | 46.512 | 86 | 44 | 2 | 5 | 88 | 145 | 230 | 1.33e-17 | 75.9 |
| Msa0374720 | MtrunA17_Chr3g0077461 | 49.367 | 79 | 37 | 3 | 5 | 81 | 390 | 467 | 2.18e-17 | 75.1 |
| Msa0374720 | MtrunA17_Chr4g0033961 | 42.857 | 84 | 43 | 3 | 5 | 86 | 311 | 391 | 1.16e-12 | 61.6 |
| Msa0374720 | MtrunA17_Chr1g0162441 | 42.353 | 85 | 46 | 2 | 5 | 88 | 315 | 397 | 2.44e-12 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 13 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTGCTCTCCATGAGAATTT+TGG | 0.185651 | 3_1:+74259240 | None:intergenic |
| CTTTATTTGCATTGTACCTT+TGG | 0.273221 | 3_1:+74259190 | None:intergenic |
| AGGTACAATGCAAATAAAGA+AGG | 0.498583 | 3_1:-74259186 | Msa0374720:CDS |
| TTGGAACATTTGACTTCAGA+TGG | 0.505390 | 3_1:+74259270 | None:intergenic |
| AGATTATTGCGTGTTTGAGC+TGG | 0.505745 | 3_1:-74259123 | Msa0374720:CDS |
| ATAAAGCTCCAAAATTCTCA+TGG | 0.514793 | 3_1:-74259248 | Msa0374720:CDS |
| AGGGACAACAATATGTCAGC+TGG | 0.526202 | 3_1:-74259146 | Msa0374720:CDS |
| TGAGCTGGTCGAGAAGAATC+CGG | 0.538768 | 3_1:-74259108 | Msa0374720:CDS |
| TGTGTATCTTATGATTCCAA+AGG | 0.564349 | 3_1:-74259206 | Msa0374720:CDS |
| AAATTCTCATGGAGAGCAGT+GGG | 0.586451 | 3_1:-74259237 | Msa0374720:CDS |
| GGTACAATGCAAATAAAGAA+GGG | 0.587793 | 3_1:-74259185 | Msa0374720:CDS |
| AAAATTCTCATGGAGAGCAG+TGG | 0.606270 | 3_1:-74259238 | Msa0374720:CDS |
| GCTGGTCGAGAAGAATCCGG+TGG | 0.731524 | 3_1:-74259105 | Msa0374720:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GAGTTTTACTTTATAGTTTT+TGG | - | chr3_1:74259152-74259171 | Msa0374720:CDS | 20.0% |
| !!! | GAAAGGAAATAAGGATTTTT+TGG | + | chr3_1:74259103-74259122 | None:intergenic | 25.0% |
| !! | AGGGATTTTCTATATTTCAA+AGG | - | chr3_1:74259367-74259386 | Msa0374720:intron | 25.0% |
| !! | GGGATTTTCTATATTTCAAA+GGG | - | chr3_1:74259368-74259387 | Msa0374720:intron | 25.0% |
| !!! | ATTTTTTGGCTTGAATGCTT+CGG | + | chr3_1:74259089-74259108 | None:intergenic | 30.0% |
| !! | GTGCATTTTGAAAGGAAATA+AGG | + | chr3_1:74259112-74259131 | None:intergenic | 30.0% |
| TTTCCTTTCAAAATGCACAA+AGG | - | chr3_1:74259114-74259133 | Msa0374720:CDS | 30.0% | |
| TTCCTTTCAAAATGCACAAA+GGG | - | chr3_1:74259115-74259134 | Msa0374720:CDS | 30.0% | |
| !!! | TGAGAATTTTGGAGCTTTAT+TGG | + | chr3_1:74259285-74259304 | None:intergenic | 30.0% |
| ATAAAGCTCCAAAATTCTCA+TGG | - | chr3_1:74259285-74259304 | Msa0374720:CDS | 30.0% | |
| TGTGTATCTTATGATTCCAA+AGG | - | chr3_1:74259327-74259346 | Msa0374720:intron | 30.0% | |
| ! | CTTTATTTGCATTGTACCTT+TGG | + | chr3_1:74259346-74259365 | None:intergenic | 30.0% |
| AGGTACAATGCAAATAAAGA+AGG | - | chr3_1:74259347-74259366 | Msa0374720:intron | 30.0% | |
| GGTACAATGCAAATAAAGAA+GGG | - | chr3_1:74259348-74259367 | Msa0374720:intron | 30.0% | |
| ! | TTCCCTTTGTGCATTTTGAA+AGG | + | chr3_1:74259120-74259139 | None:intergenic | 35.0% |
| ATGCACAAAGGGAAATTAAG+CGG | - | chr3_1:74259126-74259145 | Msa0374720:CDS | 35.0% | |
| AGAAGTAACATACTGCACAA+TGG | + | chr3_1:74259229-74259248 | None:intergenic | 35.0% | |
| ! | TTGGAACATTTGACTTCAGA+TGG | + | chr3_1:74259266-74259285 | None:intergenic | 35.0% |
| ! | ACTGCTCTCCATGAGAATTT+TGG | + | chr3_1:74259296-74259315 | None:intergenic | 40.0% |
| AAAATTCTCATGGAGAGCAG+TGG | - | chr3_1:74259295-74259314 | Msa0374720:CDS | 40.0% | |
| AAATTCTCATGGAGAGCAGT+GGG | - | chr3_1:74259296-74259315 | Msa0374720:CDS | 40.0% | |
| AGATTATTGCGTGTTTGAGC+TGG | - | chr3_1:74259410-74259429 | Msa0374720:intron | 40.0% | |
| ! | ATTGTGACTTTTAGCACCAC+CGG | + | chr3_1:74259447-74259466 | None:intergenic | 40.0% |
| AGGGACAACAATATGTCAGC+TGG | - | chr3_1:74259387-74259406 | Msa0374720:intron | 45.0% | |
| TGAGCTGGTCGAGAAGAATC+CGG | - | chr3_1:74259425-74259444 | Msa0374720:intron | 50.0% | |
| GCTGGTCGAGAAGAATCCGG+TGG | - | chr3_1:74259428-74259447 | Msa0374720:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 74259061 | 74259494 | 74259061 | ID=Msa0374720;Name=Msa0374720 |
| chr3_1 | mRNA | 74259061 | 74259494 | 74259061 | ID=Msa0374720-mRNA-1;Parent=Msa0374720;Name=Msa0374720-mRNA-1;_AED=0.33;_eAED=0.33;_QI=0|0|0|1|0|0.5|2|0|89 |
| chr3_1 | exon | 74259483 | 74259494 | 74259483 | ID=Msa0374720-mRNA-1:exon:17155;Parent=Msa0374720-mRNA-1 |
| chr3_1 | exon | 74259061 | 74259318 | 74259061 | ID=Msa0374720-mRNA-1:exon:17154;Parent=Msa0374720-mRNA-1 |
| chr3_1 | CDS | 74259483 | 74259494 | 74259483 | ID=Msa0374720-mRNA-1:cds;Parent=Msa0374720-mRNA-1 |
| chr3_1 | CDS | 74259061 | 74259318 | 74259061 | ID=Msa0374720-mRNA-1:cds;Parent=Msa0374720-mRNA-1 |
| Gene Sequence |
| Protein sequence |
