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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0562510 | XP_039685399.1 | 89.286 | 140 | 15 | 0 | 1 | 140 | 1 | 140 | 1.32e-82 | 249 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0562510 | sp|P49215|RS17_SOLLC | 87.395 | 119 | 15 | 0 | 1 | 119 | 1 | 119 | 3.17e-71 | 213 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0562510 | A0A396GQ98 | 89.286 | 140 | 15 | 0 | 1 | 140 | 1 | 140 | 6.28e-83 | 249 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0326200 | Msa0562510 | 0.800063 | 1.718157e-48 | -8.615850e-47 |
| Msa0353190 | Msa0562510 | 0.806746 | 7.082489e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0562510 | MtrunA17_Chr8g0375941 | 89.286 | 140 | 15 | 0 | 1 | 140 | 1 | 140 | 1.21e-86 | 249 |
| Msa0562510 | MtrunA17_Chr8g0375831 | 89.683 | 126 | 13 | 0 | 1 | 126 | 1 | 126 | 2.15e-77 | 225 |
| Msa0562510 | MtrunA17_Chr1g0178041 | 93.103 | 116 | 8 | 0 | 1 | 116 | 1 | 116 | 4.81e-75 | 219 |
| Msa0562510 | MtrunA17_Chr8g0375961 | 92.308 | 130 | 10 | 0 | 1 | 130 | 1 | 130 | 5.99e-75 | 219 |
| Msa0562510 | MtrunA17_Chr8g0375841 | 92.308 | 130 | 10 | 0 | 1 | 130 | 1 | 130 | 5.99e-75 | 219 |
| Msa0562510 | MtrunA17_Chr8g0375931 | 89.655 | 116 | 12 | 0 | 24 | 139 | 1 | 116 | 2.97e-71 | 210 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0562510 | AT5G04800.2 | 75.362 | 138 | 32 | 1 | 1 | 138 | 1 | 136 | 2.42e-69 | 205 |
| Msa0562510 | AT5G04800.4 | 75.362 | 138 | 32 | 1 | 1 | 138 | 1 | 136 | 2.42e-69 | 205 |
| Msa0562510 | AT5G04800.3 | 75.362 | 138 | 32 | 1 | 1 | 138 | 1 | 136 | 2.42e-69 | 205 |
| Msa0562510 | AT5G04800.1 | 75.362 | 138 | 32 | 1 | 1 | 138 | 1 | 136 | 2.42e-69 | 205 |
| Msa0562510 | AT3G10610.1 | 73.571 | 140 | 36 | 1 | 1 | 139 | 1 | 140 | 9.62e-69 | 204 |
| Msa0562510 | AT2G04390.1 | 73.759 | 141 | 36 | 1 | 1 | 140 | 1 | 141 | 2.85e-68 | 202 |
| Msa0562510 | AT2G05220.2 | 72.857 | 140 | 38 | 0 | 1 | 140 | 1 | 140 | 8.71e-68 | 201 |
| Msa0562510 | AT2G05220.1 | 72.857 | 140 | 38 | 0 | 1 | 140 | 1 | 140 | 8.71e-68 | 201 |
Find 35 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAGGATTTCTTCACGGTTT+TGG | 0.259892 | 4_1:+62451546 | None:intergenic |
| TTCCTGATGTTTCTGCTATT+AGG | 0.341443 | 4_1:-62451309 | Msa0562510:CDS |
| GAAGATTCCTGGTGTTGTTC+AGG | 0.347999 | 4_1:-62451227 | Msa0562510:CDS |
| CGTCTTTGTAACAAGATTGC+TGG | 0.353594 | 4_1:-62451430 | Msa0562510:CDS |
| CTTGGCATGTCGAAGATTCC+TGG | 0.368757 | 4_1:-62451238 | Msa0562510:CDS |
| TTCTTCAAGGATCTTCTTGT+TGG | 0.377402 | 4_1:+62451474 | None:intergenic |
| CCATATGGGATCTGCTGAAC+AGG | 0.380708 | 4_1:+62451193 | None:intergenic |
| CTAGACATGCTTGCTGCTCT+TGG | 0.411310 | 4_1:-62451256 | Msa0562510:CDS |
| GCACCAGCACCACGACCATA+TGG | 0.428749 | 4_1:+62451178 | None:intergenic |
| ATCCCATATGGTCGTGGTGC+TGG | 0.431174 | 4_1:-62451181 | Msa0562510:CDS |
| TATGGTCGTGGTGCTGGTGC+TGG | 0.432732 | 4_1:-62451175 | Msa0562510:CDS |
| TTCAATGAAATTCCACGAAC+AGG | 0.443778 | 4_1:+62451370 | None:intergenic |
| TCTCATGCAGCGTATTCAAA+AGG | 0.459582 | 4_1:-62451395 | Msa0562510:CDS |
| CAAGAGCAGCAAGCATGTCT+AGG | 0.475176 | 4_1:+62451257 | None:intergenic |
| TTGTTACAAAGACGCTTTGA+AGG | 0.475399 | 4_1:+62451439 | None:intergenic |
| GGATCAAAGCGACTTCTTCA+AGG | 0.477079 | 4_1:+62451461 | None:intergenic |
| TGATCATATTGAAGTTGATA+AGG | 0.482265 | 4_1:-62451284 | Msa0562510:CDS |
| GTCCTAATAGCAGAAACATC+AGG | 0.505221 | 4_1:+62451307 | None:intergenic |
| CCTGTTCAGCAGATCCCATA+TGG | 0.519231 | 4_1:-62451193 | Msa0562510:CDS |
| ATTCAAAAGGGACCTGTTCG+TGG | 0.521534 | 4_1:-62451382 | Msa0562510:CDS |
| TTTGGTTCGGACTCGTCCCA+TGG | 0.523667 | 4_1:+62451564 | None:intergenic |
| TTGACGAGAGGATTTCTTCA+CGG | 0.524605 | 4_1:+62451540 | None:intergenic |
| GGAGGAGCGTGATCGTCGTA+TGG | 0.525336 | 4_1:-62451338 | Msa0562510:CDS |
| GTGGTGCTGGTGCTGGAAGG+AGG | 0.550588 | 4_1:-62451168 | Msa0562510:CDS |
| CTCATGCAGCGTATTCAAAA+GGG | 0.552450 | 4_1:-62451394 | Msa0562510:CDS |
| CACCAGCACCACGACCATAT+GGG | 0.556729 | 4_1:+62451179 | None:intergenic |
| AAGAGCAGCAAGCATGTCTA+GGG | 0.560169 | 4_1:+62451258 | None:intergenic |
| GTCGTGGTGCTGGTGCTGGA+AGG | 0.566651 | 4_1:-62451171 | Msa0562510:CDS |
| TTCATTGAAGCTGCAAGAGG+AGG | 0.567846 | 4_1:-62451356 | Msa0562510:CDS |
| CGATTAACCTGAACAACACC+AGG | 0.574528 | 4_1:+62451220 | None:intergenic |
| CAGCAGATCCCATATGGTCG+TGG | 0.574554 | 4_1:-62451187 | Msa0562510:CDS |
| TGTTACAAAGACGCTTTGAA+GGG | 0.582822 | 4_1:+62451440 | None:intergenic |
| ACGCTCGATGATTTGACGAG+AGG | 0.611995 | 4_1:+62451528 | None:intergenic |
| TAACCACCCTAAAATGACAC+TGG | 0.617615 | 4_1:-62451506 | Msa0562510:CDS |
| AATTTCATTGAAGCTGCAAG+AGG | 0.634258 | 4_1:-62451359 | Msa0562510:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGATCATATTGAAGTTGATA+AGG | - | chr4_1:62451440-62451459 | Msa0562510:CDS | 25.0% |
| !!! | GAAAATCCAGTGTCATTTTA+GGG | + | chr4_1:62451227-62451246 | None:intergenic | 30.0% |
| !!! | TGAAAATCCAGTGTCATTTT+AGG | + | chr4_1:62451228-62451247 | None:intergenic | 30.0% |
| !!! | ATTTCTTCACGGTTTTGGTT+CGG | + | chr4_1:62451176-62451195 | None:intergenic | 35.0% |
| TTCTTCAAGGATCTTCTTGT+TGG | + | chr4_1:62451253-62451272 | None:intergenic | 35.0% | |
| ! | TGTTACAAAGACGCTTTGAA+GGG | + | chr4_1:62451287-62451306 | None:intergenic | 35.0% |
| TTGTTACAAAGACGCTTTGA+AGG | + | chr4_1:62451288-62451307 | None:intergenic | 35.0% | |
| TTCAATGAAATTCCACGAAC+AGG | + | chr4_1:62451357-62451376 | None:intergenic | 35.0% | |
| AATTTCATTGAAGCTGCAAG+AGG | - | chr4_1:62451365-62451384 | Msa0562510:CDS | 35.0% | |
| ! | TTCCTGATGTTTCTGCTATT+AGG | - | chr4_1:62451415-62451434 | Msa0562510:CDS | 35.0% |
| ! | AGAGGATTTCTTCACGGTTT+TGG | + | chr4_1:62451181-62451200 | None:intergenic | 40.0% |
| TTGACGAGAGGATTTCTTCA+CGG | + | chr4_1:62451187-62451206 | None:intergenic | 40.0% | |
| TAACCACCCTAAAATGACAC+TGG | - | chr4_1:62451218-62451237 | Msa0562510:CDS | 40.0% | |
| !!! | AATCCAGTGTCATTTTAGGG+TGG | + | chr4_1:62451224-62451243 | None:intergenic | 40.0% |
| CGTCTTTGTAACAAGATTGC+TGG | - | chr4_1:62451294-62451313 | Msa0562510:CDS | 40.0% | |
| TCTCATGCAGCGTATTCAAA+AGG | - | chr4_1:62451329-62451348 | Msa0562510:CDS | 40.0% | |
| CTCATGCAGCGTATTCAAAA+GGG | - | chr4_1:62451330-62451349 | Msa0562510:CDS | 40.0% | |
| GTCCTAATAGCAGAAACATC+AGG | + | chr4_1:62451420-62451439 | None:intergenic | 40.0% | |
| GGATCAAAGCGACTTCTTCA+AGG | + | chr4_1:62451266-62451285 | None:intergenic | 45.0% | |
| ATTCAAAAGGGACCTGTTCG+TGG | - | chr4_1:62451342-62451361 | Msa0562510:CDS | 45.0% | |
| TTCATTGAAGCTGCAAGAGG+AGG | - | chr4_1:62451368-62451387 | Msa0562510:CDS | 45.0% | |
| AAGAGCAGCAAGCATGTCTA+GGG | + | chr4_1:62451469-62451488 | None:intergenic | 45.0% | |
| !! | GAAGATTCCTGGTGTTGTTC+AGG | - | chr4_1:62451497-62451516 | Msa0562510:CDS | 45.0% |
| CGATTAACCTGAACAACACC+AGG | + | chr4_1:62451507-62451526 | None:intergenic | 45.0% | |
| ACGCTCGATGATTTGACGAG+AGG | + | chr4_1:62451199-62451218 | None:intergenic | 50.0% | |
| CAAGAGCAGCAAGCATGTCT+AGG | + | chr4_1:62451470-62451489 | None:intergenic | 50.0% | |
| ! | CTAGACATGCTTGCTGCTCT+TGG | - | chr4_1:62451468-62451487 | Msa0562510:CDS | 50.0% |
| CTTGGCATGTCGAAGATTCC+TGG | - | chr4_1:62451486-62451505 | Msa0562510:CDS | 50.0% | |
| CCATATGGGATCTGCTGAAC+AGG | + | chr4_1:62451534-62451553 | None:intergenic | 50.0% | |
| CCTGTTCAGCAGATCCCATA+TGG | - | chr4_1:62451531-62451550 | Msa0562510:CDS | 50.0% | |
| CAGCAGATCCCATATGGTCG+TGG | - | chr4_1:62451537-62451556 | Msa0562510:CDS | 55.0% | |
| ATCCCATATGGTCGTGGTGC+TGG | - | chr4_1:62451543-62451562 | Msa0562510:CDS | 55.0% | |
| CACCAGCACCACGACCATAT+GGG | + | chr4_1:62451548-62451567 | None:intergenic | 55.0% | |
| ! | GGAGGAGCGTGATCGTCGTA+TGG | - | chr4_1:62451386-62451405 | Msa0562510:CDS | 60.0% |
| GCACCAGCACCACGACCATA+TGG | + | chr4_1:62451549-62451568 | None:intergenic | 60.0% | |
| !! | TATGGTCGTGGTGCTGGTGC+TGG | - | chr4_1:62451549-62451568 | Msa0562510:CDS | 60.0% |
| !! | GTCGTGGTGCTGGTGCTGGA+AGG | - | chr4_1:62451553-62451572 | Msa0562510:CDS | 65.0% |
| !! | GTGGTGCTGGTGCTGGAAGG+AGG | - | chr4_1:62451556-62451575 | Msa0562510:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 62451162 | 62451584 | 62451162 | ID=Msa0562510;Name=Msa0562510 |
| chr4_1 | mRNA | 62451162 | 62451584 | 62451162 | ID=Msa0562510-mRNA-1;Parent=Msa0562510;Name=Msa0562510-mRNA-1;_AED=0.28;_eAED=0.28;_QI=0|-1|0|1|-1|1|1|0|140 |
| chr4_1 | exon | 62451162 | 62451584 | 62451162 | ID=Msa0562510-mRNA-1:exon:19763;Parent=Msa0562510-mRNA-1 |
| chr4_1 | CDS | 62451162 | 62451584 | 62451162 | ID=Msa0562510-mRNA-1:cds;Parent=Msa0562510-mRNA-1 |
| Gene Sequence |
| Protein sequence |
