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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0506620 | XP_003600574.1 | 96.637 | 446 | 10 | 3 | 1 | 445 | 1 | 442 | 0.0 | 858 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0038350 | Msa0506620 | 0.804831 | 1.788644e-49 | -8.615850e-47 |
| Msa0092660 | Msa0506620 | -0.800521 | 1.386220e-48 | -8.615850e-47 |
| Msa0137600 | Msa0506620 | -0.800905 | 1.157329e-48 | -8.615850e-47 |
| Msa0207000 | Msa0506620 | -0.801012 | 1.100485e-48 | -8.615850e-47 |
| Msa0246690 | Msa0506620 | -0.813807 | 2.122895e-51 | -8.615850e-47 |
| Msa0317260 | Msa0506620 | -0.800957 | 1.129181e-48 | -8.615850e-47 |
| Msa0342200 | Msa0506620 | -0.801585 | 8.399865e-49 | -8.615850e-47 |
| Msa0344070 | Msa0506620 | -0.803590 | 3.242544e-49 | -8.615850e-47 |
| Msa0352510 | Msa0506620 | -0.801373 | 9.282740e-49 | -8.615850e-47 |
| Msa0367290 | Msa0506620 | 0.842011 | 3.354345e-58 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0506620 | MtrunA17_Chr3g0108551 | 96.637 | 446 | 10 | 3 | 1 | 445 | 1 | 442 | 0.0 | 858 |
| Msa0506620 | MtrunA17_Chr7g0245331 | 47.884 | 378 | 166 | 10 | 1 | 373 | 1 | 352 | 2.67e-93 | 287 |
| Msa0506620 | MtrunA17_Chr8g0334431 | 58.791 | 182 | 61 | 4 | 213 | 380 | 132 | 313 | 4.07e-58 | 194 |
| Msa0506620 | MtrunA17_Chr7g0259821 | 34.263 | 251 | 131 | 5 | 147 | 378 | 53 | 288 | 2.69e-30 | 119 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0506620 | AT2G30530.1 | 59.627 | 322 | 98 | 8 | 52 | 371 | 57 | 348 | 2.31e-98 | 300 |
| Msa0506620 | AT5G01970.1 | 55.363 | 289 | 111 | 4 | 87 | 371 | 35 | 309 | 4.59e-95 | 290 |
| Msa0506620 | AT5G01970.2 | 64.623 | 212 | 70 | 3 | 164 | 371 | 2 | 212 | 4.13e-84 | 259 |
| Msa0506620 | AT1G30050.1 | 46.011 | 376 | 126 | 10 | 1 | 370 | 1 | 305 | 7.20e-82 | 258 |
| Msa0506620 | AT4G02800.1 | 36.098 | 205 | 119 | 2 | 161 | 355 | 79 | 281 | 2.40e-32 | 125 |
Find 135 sgRNAs with CRISPR-Local
Find 487 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAGAGAGAGACCTTGG+AGG | 0.577477 | 3_4:-53285847 | None:intergenic |
| AAAGGATATAAAGAGTTCTG+AGG | 0.642104 | 3_4:+53292212 | Msa0506620:CDS |
| AAATTCGAATCACTTAGAGG+AGG | 0.665089 | 3_4:+53288228 | Msa0506620:CDS |
| AAATTGAATGAGCCCAAGAG+TGG | 0.624865 | 3_4:+53287497 | Msa0506620:CDS |
| AACGCCCCAAAATCCACTCT+TGG | 0.436480 | 3_4:-53287510 | None:intergenic |
| AAGAGCATCTCTTCTATAGC+TGG | 0.472982 | 3_4:+53292267 | Msa0506620:CDS |
| AATATCCTGGCGTAACATCA+AGG | 0.490768 | 3_4:+53287612 | Msa0506620:CDS |
| AATTCAACCTCCTCGAATTC+TGG | 0.234711 | 3_4:-53285558 | None:intergenic |
| AATTCGAATCACTTAGAGGA+GGG | 0.593525 | 3_4:+53288229 | Msa0506620:CDS |
| AATTCTGGATCCAATCGAAA+CGG | 0.606576 | 3_4:-53285543 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACGGTGTAATAATTGGATTA+GGG | - | chr3_4:53285662-53285681 | None:intergenic | 30.0% | |
| TAAAGCTATTAGAGCTTCTT+CGG | + | chr3_4:53285737-53285756 | Msa0506620:CDS | 30.0% | |
| GATGGAAGAAAATTAGTTAG+AGG | + | chr3_4:53286034-53286053 | Msa0506620:intron | 30.0% | |
| AGTTGAAGAGATAGAGAAAT+TGG | + | chr3_4:53286081-53286100 | Msa0506620:intron | 30.0% | |
| CGAGTTTCCAAAAAAAAACT+TGG | + | chr3_4:53286472-53286491 | Msa0506620:intron | 30.0% | |
| TTAACAAATGCAATGCATAC+TGG | + | chr3_4:53286532-53286551 | Msa0506620:intron | 30.0% | |
| GCATATACAATGGGTATATA+TGG | + | chr3_4:53286660-53286679 | Msa0506620:intron | 30.0% | |
| ATGTATAGATGCCTTAAAAG+AGG | + | chr3_4:53286810-53286829 | Msa0506620:intron | 30.0% | |
| TGTATAGATGCCTTAAAAGA+GGG | + | chr3_4:53286811-53286830 | Msa0506620:intron | 30.0% | |
| TTCTTGTTGCATGAATTCTT+TGG | + | chr3_4:53287072-53287091 | Msa0506620:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 53285381 | 53292615 | 53285381 | ID=Msa0506620;Name=Msa0506620 |
| chr3_4 | mRNA | 53285381 | 53292615 | 53285381 | ID=Msa0506620-mRNA-1;Parent=Msa0506620;Name=Msa0506620-mRNA-1;_AED=0.20;_eAED=0.20;_QI=204|1|1|1|1|1|6|310|445 |
| chr3_4 | exon | 53285381 | 53285854 | 53285381 | ID=Msa0506620-mRNA-1:exon:11795;Parent=Msa0506620-mRNA-1 |
| chr3_4 | exon | 53287464 | 53287640 | 53287464 | ID=Msa0506620-mRNA-1:exon:11796;Parent=Msa0506620-mRNA-1 |
| chr3_4 | exon | 53288223 | 53288348 | 53288223 | ID=Msa0506620-mRNA-1:exon:11797;Parent=Msa0506620-mRNA-1 |
| chr3_4 | exon | 53288552 | 53288749 | 53288552 | ID=Msa0506620-mRNA-1:exon:11798;Parent=Msa0506620-mRNA-1 |
| chr3_4 | exon | 53289934 | 53290098 | 53289934 | ID=Msa0506620-mRNA-1:exon:11799;Parent=Msa0506620-mRNA-1 |
| chr3_4 | exon | 53291904 | 53292615 | 53291904 | ID=Msa0506620-mRNA-1:exon:11800;Parent=Msa0506620-mRNA-1 |
| chr3_4 | five_prime_UTR | 53285381 | 53285584 | 53285381 | ID=Msa0506620-mRNA-1:five_prime_utr;Parent=Msa0506620-mRNA-1 |
| chr3_4 | CDS | 53285585 | 53285854 | 53285585 | ID=Msa0506620-mRNA-1:cds;Parent=Msa0506620-mRNA-1 |
| chr3_4 | CDS | 53287464 | 53287640 | 53287464 | ID=Msa0506620-mRNA-1:cds;Parent=Msa0506620-mRNA-1 |
| chr3_4 | CDS | 53288223 | 53288348 | 53288223 | ID=Msa0506620-mRNA-1:cds;Parent=Msa0506620-mRNA-1 |
| chr3_4 | CDS | 53288552 | 53288749 | 53288552 | ID=Msa0506620-mRNA-1:cds;Parent=Msa0506620-mRNA-1 |
| chr3_4 | CDS | 53289934 | 53290098 | 53289934 | ID=Msa0506620-mRNA-1:cds;Parent=Msa0506620-mRNA-1 |
| chr3_4 | CDS | 53291904 | 53292305 | 53291904 | ID=Msa0506620-mRNA-1:cds;Parent=Msa0506620-mRNA-1 |
| chr3_4 | three_prime_UTR | 53292306 | 53292615 | 53292306 | ID=Msa0506620-mRNA-1:three_prime_utr;Parent=Msa0506620-mRNA-1 |
| Gene Sequence |
>Msa0506620 ATGGCGTATAGAAGGAGACAATACGGAACTTCTAAATCTTCTCCTTCGCTTTTCGAAGACGAAGCAATTCGAAACCCTAATCCAATTATTACACCGTCTTCTTCGAGTAATGATGGCGTTGACACTTCTTCAACTTCGGATTCTCTTGCTGCTAAAGCTATTAGAGCTTCTTCGGCGCGTCGTGATTCTTCGCTTTCGTCACTTTATGGTCACTCTAATCTCTCTTCTCCGCGGTCTCAACCTACTCCTACTGCTCCTCCATCCTCCAAGGATTCTAGAGCATATGAGTATACGTCTATGAAGAAATTGAATGAGCCCAAGAGTGGATTTTGGGGCGTTCTAGCTAGGAAAGCAAAATCAATCATTGAGGATGATAGTGTTACACCAGAATCTGAAATACCTGGGACAACAAGGTCACAATATCCTGGCGTAACATCAAGGGGAAAGGTCCAAAATTCGAATCACTTAGAGGAGGGCAATCTCAAAAGGGACAGTCCGACAATTATTAAGGGATTAGATGCTATCACATCTTCTCTTACTCATATCGGTGGCACCATTGGTAAATCTTTGGAGGAAGGTTTTACAATTGTTGAGAATAGGACTTCAGATATCATTCAGGAAACCCGTAAACATATCAGGAAAAAGCCTGGGAACTTTGTAGGACAGAGTCAGGAAACAAACCATTCTACAACGTTGCAAGAACCCCAGTTGCGGTCCCAGATGTCGCCAACGCAAGGAGATCAAGAACTTCAGCTGAAGGCATCTCGCGACGTTGCAATGGCAATGGCTGCCAAAGCAAAACTGCTTCTTCGGGAGTTGAAGACTGTCAAGGCTGATCTGGCATTTGCAAAGGATCGATGTGCTCAACTAGAGGAAGAAAATAAAATCCTCCGTGTAAATCGCGAAAGGGGAGATAGCCAAGATGATGATGATTTGATACGACTGCAACTTGAAACTCTTCTAGCTGAGAAAGCTCGCTTGGCTCATGAGAACTCAGTTTATGCTCGTGAGAATCGCTTTCTGAGGGAGGTCGTTGAATATCATCAACTTACGATGCAGGATGTTGTGTACTTAGACGAGAGCAATGAGGAAGTCTCTGAAGTTAATCCTCTTAACTTACCCCCAGTGCCTATTATGCCCCTCGATTCTAATACTCCGTCTGCCACATCCCTATCAATGTCTTCAGATGCCAATCTTGGCATGGGATCAGAATTAACAAGAGGCATTTCATCTCCCATATCAGGAAAGGATATAAAGAGTTCTGAGGTGATTGTAAAGGACTCGACGAGTTCTGAAGTGAAGAGCATCTCTTCTATAGCTGGAAAGGACGGAAAATAA |
| Protein sequence |
>Msa0506620 MAYRRRQYGTSKSSPSLFEDEAIRNPNPIITPSSSSNDGVDTSSTSDSLAAKAIRASSARRDSSLSSLYGHSNLSSPRSQPTPTAPPSSKDSRAYEYTSMKKLNEPKSGFWGVLARKAKSIIEDDSVTPESEIPGTTRSQYPGVTSRGKVQNSNHLEEGNLKRDSPTIIKGLDAITSSLTHIGGTIGKSLEEGFTIVENRTSDIIQETRKHIRKKPGNFVGQSQETNHSTTLQEPQLRSQMSPTQGDQELQLKASRDVAMAMAAKAKLLLRELKTVKADLAFAKDRCAQLEEENKILRVNRERGDSQDDDDLIRLQLETLLAEKARLAHENSVYARENRFLREVVEYHQLTMQDVVYLDESNEEVSEVNPLNLPPVPIMPLDSNTPSATSLSMSSDANLGMGSELTRGISSPISGKDIKSSEVIVKDSTSSEVKSISSIAGKDGK* |
