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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0628600 | RHN58630.1 | 89.313 | 131 | 14 | 0 | 1 | 131 | 1 | 131 | 2.06e-70 | 217 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0628600 | A0A396HZ59 | 89.313 | 131 | 14 | 0 | 1 | 131 | 1 | 131 | 9.83e-71 | 217 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0628600 | Msa0800370 | 0.810741 | 9.915822e-51 | -8.615850e-47 |
| Msa0628600 | Msa1336560 | 0.808645 | 2.797859e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0628600 | MtrunA17_Chr4g0004431 | 89.313 | 131 | 14 | 0 | 1 | 131 | 1 | 131 | 1.89e-74 | 217 |
| Msa0628600 | MtrunA17_Chr4g0004441 | 80.800 | 125 | 24 | 0 | 1 | 125 | 4 | 128 | 8.53e-64 | 190 |
| Msa0628600 | MtrunA17_Chr4g0004371 | 78.626 | 131 | 27 | 1 | 1 | 131 | 16 | 145 | 1.13e-60 | 183 |
| Msa0628600 | MtrunA17_Chr4g0004411 | 65.649 | 131 | 42 | 2 | 1 | 131 | 4 | 131 | 2.25e-58 | 177 |
| Msa0628600 | MtrunA17_Chr4g0004361 | 73.282 | 131 | 33 | 2 | 1 | 131 | 1 | 129 | 2.03e-55 | 169 |
| Msa0628600 | MtrunA17_Chr4g0004381 | 68.067 | 119 | 36 | 1 | 1 | 119 | 4 | 120 | 5.82e-53 | 163 |
| Msa0628600 | MtrunA17_Chr4g0004401 | 81.609 | 87 | 16 | 0 | 1 | 87 | 16 | 102 | 1.74e-43 | 138 |
| Msa0628600 | MtrunA17_Chr4g0004421 | 60.215 | 93 | 33 | 3 | 42 | 131 | 1 | 92 | 3.30e-16 | 68.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 14 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGAATGTGCCAATGAGTTTA+TGG | 0.192346 | 4_3:-9263239 | Msa0628600:CDS |
| AACATTCTTCTCAAAACTCT+TGG | 0.321943 | 4_3:+9263018 | None:intergenic |
| GATCGACGACGAAGAGATAT+TGG | 0.361130 | 4_3:-9262990 | Msa0628600:CDS |
| CATTCTTGCCATAAACTCAT+TGG | 0.385434 | 4_3:+9263231 | None:intergenic |
| GCTCAAGAAACAATTGCATT+TGG | 0.385665 | 4_3:-9263294 | Msa0628600:CDS |
| TGGTCAAGTTATGAGAGAAT+TGG | 0.445817 | 4_3:-9263274 | Msa0628600:CDS |
| ATTCTTCTCAAAACTCTTGG+AGG | 0.468721 | 4_3:+9263021 | None:intergenic |
| AACTCATTGGCACATTCAAA+AGG | 0.497404 | 4_3:+9263244 | None:intergenic |
| AGATAAAGAAAGCAAAGAAG+AGG | 0.509945 | 4_3:-9263177 | Msa0628600:CDS |
| TTCTCAAAACTCTTGGAGGG+TGG | 0.563274 | 4_3:+9263025 | None:intergenic |
| TTCTTCTCAAAACTCTTGGA+GGG | 0.592763 | 4_3:+9263022 | None:intergenic |
| TTCCATGGTGTATAGAGTAG+AGG | 0.610185 | 4_3:+9263339 | None:intergenic |
| CTAGGATCATATAGAAACAC+CGG | 0.638365 | 4_3:+9263133 | None:intergenic |
| GTCCTCTACTCTATACACCA+TGG | 0.660175 | 4_3:-9263341 | Msa0628600:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATCAAGCTTAAAAAAATTG+TGG | - | chr4_3:9263109-9263128 | Msa0628600:CDS | 20.0% |
| !!! | TACTTACAAAATTTTGATGA+TGG | - | chr4_3:9263207-9263226 | Msa0628600:CDS | 20.0% |
| !! | AAATTTTGTAAGTAAGAGCT+AGG | + | chr4_3:9263201-9263220 | None:intergenic | 25.0% |
| ! | ATGACCTTGAAAAATTATCA+GGG | + | chr4_3:9263248-9263267 | None:intergenic | 25.0% |
| ! | AATGACCTTGAAAAATTATC+AGG | + | chr4_3:9263249-9263268 | None:intergenic | 25.0% |
| AGATAAAGAAAGCAAAGAAG+AGG | - | chr4_3:9263136-9263155 | Msa0628600:CDS | 30.0% | |
| !! | AATTTTTAGAAGATCTTCGC+CGG | - | chr4_3:9263161-9263180 | Msa0628600:CDS | 30.0% |
| AACATTCTTCTCAAAACTCT+TGG | + | chr4_3:9263298-9263317 | None:intergenic | 30.0% | |
| !!! | GTTGCAATTTTCAAGTTCCA+TGG | + | chr4_3:9262992-9263011 | None:intergenic | 35.0% |
| GCTCAAGAAACAATTGCATT+TGG | - | chr4_3:9263019-9263038 | Msa0628600:CDS | 35.0% | |
| TGGTCAAGTTATGAGAGAAT+TGG | - | chr4_3:9263039-9263058 | Msa0628600:CDS | 35.0% | |
| AACTCATTGGCACATTCAAA+AGG | + | chr4_3:9263072-9263091 | None:intergenic | 35.0% | |
| TGAATGTGCCAATGAGTTTA+TGG | - | chr4_3:9263074-9263093 | Msa0628600:CDS | 35.0% | |
| CATTCTTGCCATAAACTCAT+TGG | + | chr4_3:9263085-9263104 | None:intergenic | 35.0% | |
| CTAGGATCATATAGAAACAC+CGG | + | chr4_3:9263183-9263202 | None:intergenic | 35.0% | |
| TGAAAAATTATCAGGGTCAG+TGG | + | chr4_3:9263241-9263260 | None:intergenic | 35.0% | |
| ! | CTGACCCTGATAATTTTTCA+AGG | - | chr4_3:9263241-9263260 | Msa0628600:CDS | 35.0% |
| TTCTTCTCAAAACTCTTGGA+GGG | + | chr4_3:9263294-9263313 | None:intergenic | 35.0% | |
| ATTCTTCTCAAAACTCTTGG+AGG | + | chr4_3:9263295-9263314 | None:intergenic | 35.0% | |
| TTCCATGGTGTATAGAGTAG+AGG | + | chr4_3:9262977-9262996 | None:intergenic | 40.0% | |
| GTCCTCTACTCTATACACCA+TGG | - | chr4_3:9262972-9262991 | Msa0628600:CDS | 45.0% | |
| TTCTCAAAACTCTTGGAGGG+TGG | + | chr4_3:9263291-9263310 | None:intergenic | 45.0% | |
| GATCGACGACGAAGAGATAT+TGG | - | chr4_3:9263323-9263342 | Msa0628600:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 9262970 | 9263365 | 9262970 | ID=Msa0628600;Name=Msa0628600 |
| chr4_3 | mRNA | 9262970 | 9263365 | 9262970 | ID=Msa0628600-mRNA-1;Parent=Msa0628600;Name=Msa0628600-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|131 |
| chr4_3 | exon | 9262970 | 9263365 | 9262970 | ID=Msa0628600-mRNA-1:exon:2791;Parent=Msa0628600-mRNA-1 |
| chr4_3 | CDS | 9262970 | 9263365 | 9262970 | ID=Msa0628600-mRNA-1:cds;Parent=Msa0628600-mRNA-1 |
| Gene Sequence |
| Protein sequence |
