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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1171000 | 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 |
|---|---|---|---|---|
| Msa0032400 | Msa1171000 | -0.804331 | 2.274211e-49 | -8.615850e-47 |
| Msa0038350 | Msa1171000 | 0.831072 | 2.054054e-55 | -8.615850e-47 |
| Msa0044810 | Msa1171000 | -0.808011 | 3.819571e-50 | -8.615850e-47 |
| Msa0048020 | Msa1171000 | -0.818205 | 2.213829e-52 | -8.615850e-47 |
| Msa0063580 | Msa1171000 | -0.801930 | 7.136458e-49 | -8.615850e-47 |
| Msa0141430 | Msa1171000 | -0.816526 | 5.284459e-52 | -8.615850e-47 |
| Msa0168100 | Msa1171000 | -0.805442 | 1.332555e-49 | -8.615850e-47 |
| Msa0185700 | Msa1171000 | -0.806428 | 8.266813e-50 | -8.615850e-47 |
| Msa0197900 | Msa1171000 | -0.805985 | 1.024474e-49 | -8.615850e-47 |
| Msa0200950 | Msa1171000 | 0.815330 | 9.772227e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1171000 | MtrunA17_Chr3g0108551 | 96.637 | 446 | 10 | 3 | 1 | 445 | 1 | 442 | 0.0 | 858 |
| Msa1171000 | MtrunA17_Chr7g0245331 | 47.884 | 378 | 166 | 10 | 1 | 373 | 1 | 352 | 2.67e-93 | 287 |
| Msa1171000 | MtrunA17_Chr8g0334431 | 58.791 | 182 | 61 | 4 | 213 | 380 | 132 | 313 | 4.07e-58 | 194 |
| Msa1171000 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1171000 | AT2G30530.1 | 59.627 | 322 | 98 | 8 | 52 | 371 | 57 | 348 | 2.31e-98 | 300 |
| Msa1171000 | AT5G01970.1 | 55.363 | 289 | 111 | 4 | 87 | 371 | 35 | 309 | 4.59e-95 | 290 |
| Msa1171000 | AT5G01970.2 | 64.623 | 212 | 70 | 3 | 164 | 371 | 2 | 212 | 4.13e-84 | 259 |
| Msa1171000 | AT1G30050.1 | 46.011 | 376 | 126 | 10 | 1 | 370 | 1 | 305 | 7.20e-82 | 258 |
| Msa1171000 | AT4G02800.1 | 36.098 | 205 | 119 | 2 | 161 | 355 | 79 | 281 | 2.40e-32 | 125 |
Find 135 sgRNAs with CRISPR-Local
Find 495 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAGAGAGAGACCTTGG+AGG | 0.577477 | 8_1:+424296 | None:intergenic |
| AAAGGATATAAAGAGTTCTG+AGG | 0.642104 | 8_1:-417904 | Msa1171000:CDS |
| AAATTCGAATCACTTAGAGG+AGG | 0.665089 | 8_1:-421914 | Msa1171000:CDS |
| AAATTGAATGAGCCCAAGAG+TGG | 0.624865 | 8_1:-422646 | Msa1171000:CDS |
| AACGCCCCAAAATCCACTCT+TGG | 0.436480 | 8_1:+422633 | None:intergenic |
| AAGAGCATCTCTTCTATAGC+TGG | 0.472982 | 8_1:-417849 | Msa1171000:CDS |
| AATATCCTGGCGTAACATCA+AGG | 0.490768 | 8_1:-422531 | Msa1171000:CDS |
| AATTCAACCTCCTCGAATTC+TGG | 0.234711 | 8_1:+424585 | None:intergenic |
| AATTCGAATCACTTAGAGGA+GGG | 0.593525 | 8_1:-421913 | Msa1171000:CDS |
| AATTCTGGATCCAATCGAAA+CGG | 0.606576 | 8_1:+424600 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACGGTGTAATAATTGGATTA+GGG | + | chr8_1:417806-417825 | None:intergenic | 30.0% | |
| TAAAGCTATTAGAGCTTCTT+CGG | - | chr8_1:417881-417900 | Msa1171000:CDS | 30.0% | |
| GATGGAAGAAAATTAGTTAG+AGG | - | chr8_1:418178-418197 | Msa1171000:CDS | 30.0% | |
| AGTTGAAGAGATAGAGAAAT+TGG | - | chr8_1:418225-418244 | Msa1171000:intron | 30.0% | |
| GCATATACAATGGGTATATA+TGG | - | chr8_1:418811-418830 | Msa1171000:intron | 30.0% | |
| ATGTATAGATGCCTTAAAAG+AGG | - | chr8_1:418961-418980 | Msa1171000:intron | 30.0% | |
| TGTATAGATGCCTTAAAAGA+GGG | - | chr8_1:418962-418981 | Msa1171000:intron | 30.0% | |
| TTCTTGTTGCATGAATTCTT+TGG | - | chr8_1:419217-419236 | Msa1171000:intron | 30.0% | |
| GAAAGCAAAATCAATCATTG+AGG | - | chr8_1:419685-419704 | Msa1171000:intron | 30.0% | |
| TATAAAAGGAAGGTAAGGAA+AGG | - | chr8_1:420109-420128 | Msa1171000:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 417525 | 424784 | 417525 | ID=Msa1171000;Name=Msa1171000 |
| chr8_1 | mRNA | 417525 | 424784 | 417525 | ID=Msa1171000-mRNA-1;Parent=Msa1171000;Name=Msa1171000-mRNA-1;_AED=0.21;_eAED=0.21;_QI=204|1|1|1|1|1|6|308|445 |
| chr8_1 | exon | 417525 | 418234 | 417525 | ID=Msa1171000-mRNA-1:exon:123;Parent=Msa1171000-mRNA-1 |
| chr8_1 | exon | 420022 | 420186 | 420022 | ID=Msa1171000-mRNA-1:exon:122;Parent=Msa1171000-mRNA-1 |
| chr8_1 | exon | 421415 | 421612 | 421415 | ID=Msa1171000-mRNA-1:exon:121;Parent=Msa1171000-mRNA-1 |
| chr8_1 | exon | 421816 | 421941 | 421816 | ID=Msa1171000-mRNA-1:exon:120;Parent=Msa1171000-mRNA-1 |
| chr8_1 | exon | 422525 | 422701 | 422525 | ID=Msa1171000-mRNA-1:exon:119;Parent=Msa1171000-mRNA-1 |
| chr8_1 | exon | 424311 | 424784 | 424311 | ID=Msa1171000-mRNA-1:exon:118;Parent=Msa1171000-mRNA-1 |
| chr8_1 | five_prime_UTR | 424581 | 424784 | 424581 | ID=Msa1171000-mRNA-1:five_prime_utr;Parent=Msa1171000-mRNA-1 |
| chr8_1 | CDS | 424311 | 424580 | 424311 | ID=Msa1171000-mRNA-1:cds;Parent=Msa1171000-mRNA-1 |
| chr8_1 | CDS | 422525 | 422701 | 422525 | ID=Msa1171000-mRNA-1:cds;Parent=Msa1171000-mRNA-1 |
| chr8_1 | CDS | 421816 | 421941 | 421816 | ID=Msa1171000-mRNA-1:cds;Parent=Msa1171000-mRNA-1 |
| chr8_1 | CDS | 421415 | 421612 | 421415 | ID=Msa1171000-mRNA-1:cds;Parent=Msa1171000-mRNA-1 |
| chr8_1 | CDS | 420022 | 420186 | 420022 | ID=Msa1171000-mRNA-1:cds;Parent=Msa1171000-mRNA-1 |
| chr8_1 | CDS | 417833 | 418234 | 417833 | ID=Msa1171000-mRNA-1:cds;Parent=Msa1171000-mRNA-1 |
| chr8_1 | three_prime_UTR | 417525 | 417832 | 417525 | ID=Msa1171000-mRNA-1:three_prime_utr;Parent=Msa1171000-mRNA-1 |
| Gene Sequence |
>Msa1171000 ATGGCGTATAGAAGGAGACAATACGGAACTTCTAAATCTTCTCCTTCGCTTTTCGAAGACGAAGCAATTCGAAACCCTAATCCAATTATTACACCGTCTTCTTCGAGTAATGATGGCGTTGACACTTCTTCAACTTCGGATTCTCTTGCTGCTAAAGCTATTAGAGCTTCTTCGGCGCGTCGTGATTCTTCGCTTTCGTCGCTTTATGGTCACTCTAATCTCTCTTCTCCGCGGTCTCAACCTACTCCTACTGCTCCTCCATCCTCCAAGGATTCTAGAGCATATGAGTATACGTCTATGAAGAAATTGAATGAGCCCAAGAGTGGATTTTGGGGCGTTCTAGCTAGGAAAGCAAAATCAATCATTGAGGATGATAGTGTTACACCAGAATCTGAAATACCTGGGACAACAAGGTCACAATATCCTGGCGTAACATCAAGGGGAAAGGTCCAAAATTCGAATCACTTAGAGGAGGGCAATCTCAAAAGGGACAGTCCGACAATTATTAAGGGATTAGATGCTATCACATCTTCTCTTACTCATATCGGTGGCACCATTGGTAAATCTTTGGAGGAAGGTTTTACAATTGTTGAGAATAGGACTTCAGATATCATTCAGGAAACCCGTAAACATATCAGGAAAAAGCCTGGGAACTTTGTAGGACAGAGTCAGGAAACAAACCATTCTACAACGTTGCAAGAACCCCAGTTGCGGTCCCAGATGTCGCCAACGCAAGGAGATCAAGAACTTCAGCTGAAGGCATCTCGCGACGTTGCAATGGCAATGGCTGCCAAAGCAAAACTGCTTCTTCGGGAGTTGAAGACTGTCAAGGCTGATCTGGCATTTGCAAAGGATCGATGTGCTCAACTAGAGGAAGAAAATAAAATCCTCCGTGTAAATCGCGAAAGGGGAGATAGCCAAGATGATGATGATTTGATACGACTGCAACTTGAAACTCTTCTAGCTGAGAAAGCTCGCTTGGCTCATGAGAACTCAGTTTATGCTCGTGAGAATCGCTTTCTGAGGGAGGTCGTTGAATATCATCAACTTACGATGCAGGATGTTGTGTACTTAGACGAGAGCAATGAGGAAGTCTCTGAAGTTAATCCTCTTAACTTACCCCCAGTGCCTATTATGCCCCTCGATTCTAATACTCCGTCTGCCACATCCCTATCAATGTCTTCAGATGCCAATCTTGGCATGGGATCAGAATTAACAAGAGGCATTTCATCTCCCATATCAGGAAAGGATATAAAGAGTTCTGAGGTGATTGTAAAGGACTCGACGAGTTCTGAAGTGAAGAGCATCTCTTCTATAGCTGGAAAGGACGGAAAATAA |
| Protein sequence |
>Msa1171000 MAYRRRQYGTSKSSPSLFEDEAIRNPNPIITPSSSSNDGVDTSSTSDSLAAKAIRASSARRDSSLSSLYGHSNLSSPRSQPTPTAPPSSKDSRAYEYTSMKKLNEPKSGFWGVLARKAKSIIEDDSVTPESEIPGTTRSQYPGVTSRGKVQNSNHLEEGNLKRDSPTIIKGLDAITSSLTHIGGTIGKSLEEGFTIVENRTSDIIQETRKHIRKKPGNFVGQSQETNHSTTLQEPQLRSQMSPTQGDQELQLKASRDVAMAMAAKAKLLLRELKTVKADLAFAKDRCAQLEEENKILRVNRERGDSQDDDDLIRLQLETLLAEKARLAHENSVYARENRFLREVVEYHQLTMQDVVYLDESNEEVSEVNPLNLPPVPIMPLDSNTPSATSLSMSSDANLGMGSELTRGISSPISGKDIKSSEVIVKDSTSSEVKSISSIAGKDGK* |
