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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0503190 | XP_003621910.1 | 66.204 | 216 | 61 | 3 | 1 | 208 | 1 | 212 | 4.92e-93 | 281 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0503190 | G7KXW3 | 66.204 | 216 | 61 | 3 | 1 | 208 | 1 | 212 | 2.35e-93 | 281 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0054250 | Msa0503190 | 0.802423 | 5.651280e-49 | -8.615850e-47 |
| Msa0100080 | Msa0503190 | 0.825040 | 5.821511e-54 | -8.615850e-47 |
| Msa0141250 | Msa0503190 | 0.810748 | 9.879397e-51 | -8.615850e-47 |
| Msa0487440 | Msa0503190 | 0.802045 | 6.757058e-49 | -8.615850e-47 |
| Msa0503170 | Msa0503190 | 0.941510 | 3.666901e-101 | -8.615850e-47 |
| Msa0503180 | Msa0503190 | 0.941267 | 5.597257e-101 | -8.615850e-47 |
| Msa0503190 | Msa0559240 | 0.825960 | 3.524391e-54 | -8.615850e-47 |
| Msa0503190 | Msa0737520 | 0.805938 | 1.048332e-49 | -8.615850e-47 |
| Msa0503190 | Msa0776720 | 0.806324 | 8.692480e-50 | -8.615850e-47 |
| Msa0503190 | Msa1381960 | 0.810061 | 1.390288e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0503190 | MtrunA17_Chr7g0223411 | 66.204 | 216 | 61 | 3 | 1 | 208 | 1 | 212 | 4.53e-97 | 281 |
| Msa0503190 | MtrunA17_Chr7g0223461 | 43.556 | 225 | 101 | 7 | 1 | 204 | 1 | 220 | 3.25e-52 | 167 |
| Msa0503190 | MtrunA17_Chr7g0223421 | 40.726 | 248 | 99 | 8 | 1 | 207 | 4 | 244 | 1.39e-49 | 161 |
| Msa0503190 | MtrunA17_Chr7g0223501 | 42.324 | 241 | 99 | 9 | 1 | 208 | 1 | 234 | 3.73e-49 | 160 |
| Msa0503190 | MtrunA17_Chr4g0034271 | 30.870 | 230 | 111 | 7 | 17 | 208 | 25 | 244 | 5.34e-23 | 92.8 |
| Msa0503190 | MtrunA17_Chr1g0162651 | 29.185 | 233 | 114 | 8 | 17 | 208 | 43 | 265 | 7.62e-22 | 90.1 |
| Msa0503190 | MtrunA17_Chr3g0101771 | 51.923 | 52 | 25 | 0 | 1 | 52 | 1 | 52 | 6.83e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0503190 | AT2G16050.1 | 30.672 | 238 | 123 | 10 | 4 | 208 | 13 | 241 | 3.96e-24 | 95.9 |
Find 31 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTGAAGTGTTTCAAGGATA+TGG | 0.264954 | 3_4:+46168565 | Msa0503190:CDS |
| CATATGACCAACCTTCAAAT+TGG | 0.292759 | 3_4:-46168511 | None:intergenic |
| CCTGCTATCATGAAATTTAC+TGG | 0.308029 | 3_4:+46168632 | Msa0503190:CDS |
| TTACAATGAACACACTTTGA+TGG | 0.327459 | 3_4:-46168467 | None:intergenic |
| ATTGTGGAAGCCGCGGCTTC+AGG | 0.355715 | 3_4:+46168719 | Msa0503190:CDS |
| AATAATAATAAGAGGTCAAA+AGG | 0.360252 | 3_4:+46168602 | Msa0503190:CDS |
| GGTGTAGAGCATAGTCTGTT+TGG | 0.375990 | 3_4:-46168370 | None:intergenic |
| ATCAAAGTGTGTTCATTGTA+AGG | 0.384337 | 3_4:+46168469 | Msa0503190:CDS |
| GAAATTTACTGGCAAATTAG+TGG | 0.406057 | 3_4:+46168643 | Msa0503190:CDS |
| TTGCAATTGCACATTCTGTA+TGG | 0.422174 | 3_4:-46168215 | None:intergenic |
| CCAGTAAATTTCATGATAGC+AGG | 0.424965 | 3_4:-46168632 | None:intergenic |
| GCTTGTGGAAAAGATTTGTT+AGG | 0.436947 | 3_4:+46168329 | Msa0503190:CDS |
| GTGTAGAGCATAGTCTGTTT+GGG | 0.456600 | 3_4:-46168369 | None:intergenic |
| AAAGTTTGAATAATAATAAG+AGG | 0.467019 | 3_4:+46168594 | Msa0503190:CDS |
| TGTTCATGTGAAGTGTTTCA+AGG | 0.490839 | 3_4:+46168559 | Msa0503190:CDS |
| TAATGTATGTTGATGATCCA+TGG | 0.498317 | 3_4:-46168088 | None:intergenic |
| GTTGCGAGGAACCAATTTGA+AGG | 0.507705 | 3_4:+46168500 | Msa0503190:CDS |
| ATGGTAGCCATAAAACTAGT+AGG | 0.537312 | 3_4:-46168698 | None:intergenic |
| GGCTACCATTGTGGAAGCCG+CGG | 0.541101 | 3_4:+46168712 | Msa0503190:CDS |
| ATAATAATAAGAGGTCAAAA+GGG | 0.541908 | 3_4:+46168603 | Msa0503190:CDS |
| CATAGTCTGTTTGGGAACAA+TGG | 0.556656 | 3_4:-46168361 | None:intergenic |
| ATGTAGTTAATTCTGATGAA+AGG | 0.564478 | 3_4:+46168531 | Msa0503190:intron |
| TCTTTCAGCTTCAAACAACA+AGG | 0.592460 | 3_4:-46168392 | None:intergenic |
| AATGTATGTTGATGATCCAT+GGG | 0.613945 | 3_4:-46168087 | None:intergenic |
| TACATTACAACTGAACGTTG+TGG | 0.619382 | 3_4:+46168104 | Msa0503190:CDS |
| CTTTCAGCTTCAAACAACAA+GGG | 0.622276 | 3_4:-46168391 | None:intergenic |
| CAAGCATCACAGAATCCACC+TGG | 0.622946 | 3_4:-46168311 | None:intergenic |
| GGTGGATTCTGTGATGCTTG+TGG | 0.625129 | 3_4:+46168314 | Msa0503190:CDS |
| TGAAGCCGCGGCTTCCACAA+TGG | 0.639331 | 3_4:-46168717 | None:intergenic |
| GTAAGGATATGCATGTTGCG+AGG | 0.703293 | 3_4:+46168486 | Msa0503190:CDS |
| ACGTGAGAAGCAGGACCAGG+TGG | 0.709201 | 3_4:+46168296 | Msa0503190:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAAAGCATTTATTGAAAAA+TGG | - | chr3_4:46168270-46168289 | None:intergenic | 15.0% |
| !! | AAAGTTTGAATAATAATAAG+AGG | + | chr3_4:46168594-46168613 | Msa0503190:CDS | 15.0% |
| !! | TTTATTGAAAAATGGATGAA+CGG | - | chr3_4:46168262-46168281 | None:intergenic | 20.0% |
| !!! | GATAAATTTTGTGATAAAGA+TGG | + | chr3_4:46168413-46168432 | Msa0503190:CDS | 20.0% |
| !! | AATAATAATAAGAGGTCAAA+AGG | + | chr3_4:46168602-46168621 | Msa0503190:CDS | 20.0% |
| !! | ATAATAATAAGAGGTCAAAA+GGG | + | chr3_4:46168603-46168622 | Msa0503190:CDS | 20.0% |
| ! | ATGTAGTTAATTCTGATGAA+AGG | + | chr3_4:46168531-46168550 | Msa0503190:intron | 25.0% |
| ! | TTTTGTAAAGAGCTAGGTTA+TGG | + | chr3_4:46168150-46168169 | Msa0503190:CDS | 30.0% |
| TTACAATGAACACACTTTGA+TGG | - | chr3_4:46168470-46168489 | None:intergenic | 30.0% | |
| ATCAAAGTGTGTTCATTGTA+AGG | + | chr3_4:46168469-46168488 | Msa0503190:CDS | 30.0% | |
| GAAATTTACTGGCAAATTAG+TGG | + | chr3_4:46168643-46168662 | Msa0503190:CDS | 30.0% | |
| !!! | ACTAATCGACGTTGTTTTAA+TGG | + | chr3_4:46168673-46168692 | Msa0503190:CDS | 30.0% |
| !!! | AATGGATCCTACTAGTTTTA+TGG | + | chr3_4:46168691-46168710 | Msa0503190:CDS | 30.0% |
| TACATTACAACTGAACGTTG+TGG | + | chr3_4:46168104-46168123 | Msa0503190:CDS | 35.0% | |
| ! | TGCAGTTTTTGTAAAGAGCT+AGG | + | chr3_4:46168144-46168163 | Msa0503190:CDS | 35.0% |
| TTGCAATTGCACATTCTGTA+TGG | - | chr3_4:46168218-46168237 | None:intergenic | 35.0% | |
| !!! | TTTTAAGTTACGTGAGAAGC+AGG | + | chr3_4:46168287-46168306 | Msa0503190:intron | 35.0% |
| ! | GCTTGTGGAAAAGATTTGTT+AGG | + | chr3_4:46168329-46168348 | Msa0503190:CDS | 35.0% |
| CTTTCAGCTTCAAACAACAA+GGG | - | chr3_4:46168394-46168413 | None:intergenic | 35.0% | |
| TCTTTCAGCTTCAAACAACA+AGG | - | chr3_4:46168395-46168414 | None:intergenic | 35.0% | |
| CATATGACCAACCTTCAAAT+TGG | - | chr3_4:46168514-46168533 | None:intergenic | 35.0% | |
| ! | TGTTCATGTGAAGTGTTTCA+AGG | + | chr3_4:46168559-46168578 | Msa0503190:CDS | 35.0% |
| ! | TGTGAAGTGTTTCAAGGATA+TGG | + | chr3_4:46168565-46168584 | Msa0503190:CDS | 35.0% |
| CCAGTAAATTTCATGATAGC+AGG | - | chr3_4:46168635-46168654 | None:intergenic | 35.0% | |
| CCTGCTATCATGAAATTTAC+TGG | + | chr3_4:46168632-46168651 | Msa0503190:CDS | 35.0% | |
| ATGGTAGCCATAAAACTAGT+AGG | - | chr3_4:46168701-46168720 | None:intergenic | 35.0% | |
| !!! | TAGTTTTATGGCTACCATTG+TGG | + | chr3_4:46168703-46168722 | Msa0503190:CDS | 35.0% |
| !!! | TGCAATTGCTGTTTTCACAG+TGG | - | chr3_4:46168185-46168204 | None:intergenic | 40.0% |
| CATAGTCTGTTTGGGAACAA+TGG | - | chr3_4:46168364-46168383 | None:intergenic | 40.0% | |
| GTGTAGAGCATAGTCTGTTT+GGG | - | chr3_4:46168372-46168391 | None:intergenic | 40.0% | |
| GGTGTAGAGCATAGTCTGTT+TGG | - | chr3_4:46168373-46168392 | None:intergenic | 45.0% | |
| GTAAGGATATGCATGTTGCG+AGG | + | chr3_4:46168486-46168505 | Msa0503190:CDS | 45.0% | |
| GTTGCGAGGAACCAATTTGA+AGG | + | chr3_4:46168500-46168519 | Msa0503190:CDS | 45.0% | |
| CGAGGAACCAATTTGAAGGT+TGG | + | chr3_4:46168504-46168523 | Msa0503190:intron | 45.0% | |
| CAAGCATCACAGAATCCACC+TGG | - | chr3_4:46168314-46168333 | None:intergenic | 50.0% | |
| ! | GGTGGATTCTGTGATGCTTG+TGG | + | chr3_4:46168314-46168333 | Msa0503190:CDS | 50.0% |
| GTTACGTGAGAAGCAGGACC+AGG | + | chr3_4:46168293-46168312 | Msa0503190:intron | 55.0% | |
| ACGTGAGAAGCAGGACCAGG+TGG | + | chr3_4:46168296-46168315 | Msa0503190:intron | 60.0% | |
| GGCTACCATTGTGGAAGCCG+CGG | + | chr3_4:46168712-46168731 | Msa0503190:CDS | 60.0% | |
| TGAAGCCGCGGCTTCCACAA+TGG | - | chr3_4:46168720-46168739 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 46168090 | 46168739 | 46168090 | ID=Msa0503190;Name=Msa0503190 |
| chr3_4 | mRNA | 46168090 | 46168739 | 46168090 | ID=Msa0503190-mRNA-1;Parent=Msa0503190;Name=Msa0503190-mRNA-1;_AED=0.02;_eAED=0.03;_QI=0|0|0|1|0|0|3|0|208 |
| chr3_4 | exon | 46168090 | 46168297 | 46168090 | ID=Msa0503190-mRNA-1:exon:9873;Parent=Msa0503190-mRNA-1 |
| chr3_4 | exon | 46168309 | 46168521 | 46168309 | ID=Msa0503190-mRNA-1:exon:9874;Parent=Msa0503190-mRNA-1 |
| chr3_4 | exon | 46168537 | 46168739 | 46168537 | ID=Msa0503190-mRNA-1:exon:9875;Parent=Msa0503190-mRNA-1 |
| chr3_4 | CDS | 46168090 | 46168297 | 46168090 | ID=Msa0503190-mRNA-1:cds;Parent=Msa0503190-mRNA-1 |
| chr3_4 | CDS | 46168309 | 46168521 | 46168309 | ID=Msa0503190-mRNA-1:cds;Parent=Msa0503190-mRNA-1 |
| chr3_4 | CDS | 46168537 | 46168739 | 46168537 | ID=Msa0503190-mRNA-1:cds;Parent=Msa0503190-mRNA-1 |
| Gene Sequence |
| Protein sequence |
