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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0911090 | RHN51042.1 | 85.833 | 120 | 13 | 1 | 13 | 128 | 122 | 241 | 3.71e-64 | 211 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|---|---|
| Msa0911090 | TF | B3 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0911090 | MtrunA17_Chr6g0464121 | 85.833 | 120 | 13 | 1 | 13 | 128 | 122 | 241 | 3.42e-68 | 211 |
| Msa0911090 | MtrunA17_Chr1g0154071 | 78.049 | 82 | 17 | 1 | 1 | 81 | 405 | 486 | 9.77e-38 | 135 |
| Msa0911090 | MtrunA17_Chr1g0154041 | 71.605 | 81 | 23 | 0 | 1 | 81 | 270 | 350 | 5.92e-36 | 132 |
| Msa0911090 | MtrunA17_Chr1g0154041 | 52.174 | 69 | 33 | 0 | 1 | 69 | 499 | 567 | 7.79e-18 | 80.9 |
| Msa0911090 | MtrunA17_Chr1g0154131 | 65.432 | 81 | 28 | 0 | 1 | 81 | 389 | 469 | 4.11e-33 | 123 |
| Msa0911090 | MtrunA17_Chr1g0154211 | 60.494 | 81 | 32 | 0 | 1 | 81 | 296 | 376 | 5.26e-32 | 119 |
| Msa0911090 | MtrunA17_Chr1g0154101 | 64.198 | 81 | 29 | 0 | 1 | 81 | 521 | 601 | 3.58e-31 | 119 |
| Msa0911090 | MtrunA17_Chr1g0154101 | 45.882 | 85 | 39 | 2 | 1 | 81 | 745 | 826 | 5.15e-15 | 72.8 |
| Msa0911090 | MtrunA17_Chr1g0154111 | 65.432 | 81 | 28 | 0 | 1 | 81 | 279 | 359 | 5.91e-30 | 115 |
| Msa0911090 | MtrunA17_Chr1g0154121 | 57.333 | 75 | 30 | 1 | 9 | 81 | 1 | 75 | 4.15e-22 | 86.3 |
| Msa0911090 | MtrunA17_Chr1g0154191 | 46.988 | 83 | 27 | 2 | 1 | 69 | 264 | 343 | 3.63e-17 | 78.2 |
| Msa0911090 | MtrunA17_Chr1g0154171 | 47.826 | 69 | 36 | 0 | 1 | 69 | 264 | 332 | 1.87e-15 | 73.2 |
| Msa0911090 | MtrunA17_Chr1g0154161 | 49.275 | 69 | 35 | 0 | 1 | 69 | 228 | 296 | 7.24e-15 | 71.6 |
| Msa0911090 | MtrunA17_Chr1g0154151 | 49.275 | 69 | 32 | 1 | 1 | 69 | 237 | 302 | 8.07e-15 | 71.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 35 sgRNAs with CRISPR-Local
Find 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTACAAGATTAGAATATTT+AGG | 0.173479 | 6_2:-16760564 | Msa0911090:CDS |
| AAAATCTTTGTATTGCATTT+TGG | 0.202702 | 6_2:+16760916 | None:intergenic |
| TTACAAGATTAGAATATTTA+GGG | 0.297911 | 6_2:-16760563 | Msa0911090:CDS |
| TATTTCAGAAGAGTTCAAAA+AGG | 0.375040 | 6_2:-16760399 | Msa0911090:CDS |
| ATGCACCATCGAAAATTGAT+AGG | 0.375789 | 6_2:+16760942 | None:intergenic |
| CTTAATCCCACCCATGTGTT+GGG | 0.378032 | 6_2:+16760635 | None:intergenic |
| TGTCTGTGGCAATAACATAA+AGG | 0.384461 | 6_2:-16760797 | Msa0911090:CDS |
| ATGTGTTGGGTTGTGTTCAA+TGG | 0.396236 | 6_2:+16760648 | None:intergenic |
| CTCTCTATGTGGAGGATGGA+TGG | 0.421078 | 6_2:-16760824 | Msa0911090:CDS |
| TGTGTTGGGTTGTGTTCAAT+GGG | 0.432239 | 6_2:+16760649 | None:intergenic |
| CTCCATTCCCGCTAGTAATA+CGG | 0.433921 | 6_2:+16760464 | None:intergenic |
| GTTGTGTTCAATGGGATTGT+AGG | 0.440404 | 6_2:+16760657 | None:intergenic |
| GCATTCATTGGATTAGATGA+TGG | 0.443315 | 6_2:-16760513 | Msa0911090:CDS |
| CTAGTAATACGGAAATTTCC+AGG | 0.443988 | 6_2:+16760475 | None:intergenic |
| TTCCGTATTACTAGCGGGAA+TGG | 0.453829 | 6_2:-16760466 | Msa0911090:CDS |
| TCTTAATCCCACCCATGTGT+TGG | 0.464109 | 6_2:+16760634 | None:intergenic |
| ACACACTTGGCCTTCAGTGT+TGG | 0.508355 | 6_2:-16760591 | Msa0911090:CDS |
| GGAAATTTCCGTATTACTAG+CGG | 0.521584 | 6_2:-16760472 | Msa0911090:CDS |
| ATAATTTGAAGGGAGAACAC+TGG | 0.530376 | 6_2:-16760888 | Msa0911090:CDS |
| TGTGGCAATAACATAAAGGT+TGG | 0.532211 | 6_2:-16760793 | Msa0911090:CDS |
| ACATGTAGCTTTCACACACT+TGG | 0.534380 | 6_2:-16760604 | Msa0911090:CDS |
| GAGGTTAGAAAAGATTTGGC+TGG | 0.542402 | 6_2:-16760715 | Msa0911090:intron |
| ATTGAACACAACCCAACACA+TGG | 0.551729 | 6_2:-16760646 | Msa0911090:CDS |
| GAAATTTCCGTATTACTAGC+GGG | 0.552281 | 6_2:-16760471 | Msa0911090:CDS |
| CATACAAGTTGCTCTCTATG+TGG | 0.567803 | 6_2:-16760835 | Msa0911090:CDS |
| TTCAGTGCTTCCTCACACGC+AGG | 0.575664 | 6_2:+16760690 | None:intergenic |
| AACACAACCCAACACATGGG+TGG | 0.577776 | 6_2:-16760642 | Msa0911090:CDS |
| TGCACCATCGAAAATTGATA+GGG | 0.583572 | 6_2:+16760943 | None:intergenic |
| TGTAATATCACCAACACTGA+AGG | 0.585801 | 6_2:+16760581 | None:intergenic |
| TGGTATTGTTGTACACTACC+TGG | 0.587252 | 6_2:-16760493 | Msa0911090:CDS |
| ACACAACCCAACACATGGGT+GGG | 0.595256 | 6_2:-16760641 | Msa0911090:CDS |
| GTTGCTCTCTATGTGGAGGA+TGG | 0.603820 | 6_2:-16760828 | Msa0911090:CDS |
| ACAAGTTGCTCTCTATGTGG+AGG | 0.651029 | 6_2:-16760832 | Msa0911090:CDS |
| ATTTCGTGTTCCCATCGCTG+AGG | 0.655398 | 6_2:-16760734 | Msa0911090:intron |
| TTGAACACAACCCAACACAT+GGG | 0.679832 | 6_2:-16760645 | Msa0911090:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTCTTCATAATTTGAA+GGG | - | chr6_2:16760437-16760456 | Msa0911090:CDS | 15.0% |
| !! | ATTACAAGATTAGAATATTT+AGG | - | chr6_2:16760771-16760790 | Msa0911090:CDS | 15.0% |
| !! | TTACAAGATTAGAATATTTA+GGG | - | chr6_2:16760772-16760791 | Msa0911090:CDS | 15.0% |
| !!! | AAAATCTTTGTATTGCATTT+TGG | + | chr6_2:16760422-16760441 | None:intergenic | 20.0% |
| !!! | GATTTTTCTTCATAATTTGA+AGG | - | chr6_2:16760436-16760455 | Msa0911090:CDS | 20.0% |
| ! | TATTTCAGAAGAGTTCAAAA+AGG | - | chr6_2:16760936-16760955 | Msa0911090:CDS | 25.0% |
| ! | TATACCCTATCAATTTTCGA+TGG | - | chr6_2:16760388-16760407 | Msa0911090:CDS | 30.0% |
| !!! | GTTACTTGTTTTGCATTCAT+TGG | - | chr6_2:16760810-16760829 | Msa0911090:CDS | 30.0% |
| AGTTCAAAAAGGAGTTTCTT+TGG | - | chr6_2:16760947-16760966 | Msa0911090:CDS | 30.0% | |
| GTTCAAAAAGGAGTTTCTTT+GGG | - | chr6_2:16760948-16760967 | Msa0911090:CDS | 30.0% | |
| TGCACCATCGAAAATTGATA+GGG | + | chr6_2:16760395-16760414 | None:intergenic | 35.0% | |
| ATGCACCATCGAAAATTGAT+AGG | + | chr6_2:16760396-16760415 | None:intergenic | 35.0% | |
| ATAATTTGAAGGGAGAACAC+TGG | - | chr6_2:16760447-16760466 | Msa0911090:CDS | 35.0% | |
| TGTCTGTGGCAATAACATAA+AGG | - | chr6_2:16760538-16760557 | Msa0911090:CDS | 35.0% | |
| TGTGGCAATAACATAAAGGT+TGG | - | chr6_2:16760542-16760561 | Msa0911090:CDS | 35.0% | |
| TGTAATATCACCAACACTGA+AGG | + | chr6_2:16760757-16760776 | None:intergenic | 35.0% | |
| ! | GCATTCATTGGATTAGATGA+TGG | - | chr6_2:16760822-16760841 | Msa0911090:CDS | 35.0% |
| CTAGTAATACGGAAATTTCC+AGG | + | chr6_2:16760863-16760882 | None:intergenic | 35.0% | |
| GGAAATTTCCGTATTACTAG+CGG | - | chr6_2:16760863-16760882 | Msa0911090:CDS | 35.0% | |
| GAAATTTCCGTATTACTAGC+GGG | - | chr6_2:16760864-16760883 | Msa0911090:CDS | 35.0% | |
| CATACAAGTTGCTCTCTATG+TGG | - | chr6_2:16760500-16760519 | Msa0911090:CDS | 40.0% | |
| ! | TCTTTTCTAACCTCAGCGAT+GGG | + | chr6_2:16760614-16760633 | None:intergenic | 40.0% |
| ! | ATCTTTTCTAACCTCAGCGA+TGG | + | chr6_2:16760615-16760634 | None:intergenic | 40.0% |
| CGCTGAGGTTAGAAAAGATT+TGG | - | chr6_2:16760616-16760635 | Msa0911090:CDS | 40.0% | |
| GAGGTTAGAAAAGATTTGGC+TGG | - | chr6_2:16760620-16760639 | Msa0911090:CDS | 40.0% | |
| GTTGTGTTCAATGGGATTGT+AGG | + | chr6_2:16760681-16760700 | None:intergenic | 40.0% | |
| ! | TGTGTTGGGTTGTGTTCAAT+GGG | + | chr6_2:16760689-16760708 | None:intergenic | 40.0% |
| ! | ATGTGTTGGGTTGTGTTCAA+TGG | + | chr6_2:16760690-16760709 | None:intergenic | 40.0% |
| ATTGAACACAACCCAACACA+TGG | - | chr6_2:16760689-16760708 | Msa0911090:CDS | 40.0% | |
| TTGAACACAACCCAACACAT+GGG | - | chr6_2:16760690-16760709 | Msa0911090:CDS | 40.0% | |
| ACATGTAGCTTTCACACACT+TGG | - | chr6_2:16760731-16760750 | Msa0911090:intron | 40.0% | |
| TGGTATTGTTGTACACTACC+TGG | - | chr6_2:16760842-16760861 | Msa0911090:CDS | 40.0% | |
| ACAAGTTGCTCTCTATGTGG+AGG | - | chr6_2:16760503-16760522 | Msa0911090:CDS | 45.0% | |
| !! | GGATGGATGGATTTTGTCTG+TGG | - | chr6_2:16760524-16760543 | Msa0911090:CDS | 45.0% |
| CTTAATCCCACCCATGTGTT+GGG | + | chr6_2:16760703-16760722 | None:intergenic | 45.0% | |
| TCTTAATCCCACCCATGTGT+TGG | + | chr6_2:16760704-16760723 | None:intergenic | 45.0% | |
| TTCCGTATTACTAGCGGGAA+TGG | - | chr6_2:16760869-16760888 | Msa0911090:CDS | 45.0% | |
| CTCCATTCCCGCTAGTAATA+CGG | + | chr6_2:16760874-16760893 | None:intergenic | 45.0% | |
| GTTGCTCTCTATGTGGAGGA+TGG | - | chr6_2:16760507-16760526 | Msa0911090:CDS | 50.0% | |
| CTCTCTATGTGGAGGATGGA+TGG | - | chr6_2:16760511-16760530 | Msa0911090:CDS | 50.0% | |
| ATTTCGTGTTCCCATCGCTG+AGG | - | chr6_2:16760601-16760620 | Msa0911090:CDS | 50.0% | |
| AACACAACCCAACACATGGG+TGG | - | chr6_2:16760693-16760712 | Msa0911090:CDS | 50.0% | |
| ACACAACCCAACACATGGGT+GGG | - | chr6_2:16760694-16760713 | Msa0911090:CDS | 50.0% | |
| ! | ACACACTTGGCCTTCAGTGT+TGG | - | chr6_2:16760744-16760763 | Msa0911090:CDS | 50.0% |
| TTCAGTGCTTCCTCACACGC+AGG | + | chr6_2:16760648-16760667 | None:intergenic | 55.0% | |
| TTGGCTGGCACCTGCGTGTG+AGG | - | chr6_2:16760635-16760654 | Msa0911090:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_2 | gene | 16760383 | 16760974 | 16760383 | ID=Msa0911090;Name=Msa0911090 |
| chr6_2 | mRNA | 16760383 | 16760974 | 16760383 | ID=Msa0911090-mRNA-1;Parent=Msa0911090;Name=Msa0911090-mRNA-1;_AED=0.13;_eAED=0.55;_QI=0|0|0|1|0|0|2|0|193 |
| chr6_2 | exon | 16760735 | 16760974 | 16760735 | ID=Msa0911090-mRNA-1:exon:3641;Parent=Msa0911090-mRNA-1 |
| chr6_2 | exon | 16760383 | 16760724 | 16760383 | ID=Msa0911090-mRNA-1:exon:3640;Parent=Msa0911090-mRNA-1 |
| chr6_2 | CDS | 16760735 | 16760974 | 16760735 | ID=Msa0911090-mRNA-1:cds;Parent=Msa0911090-mRNA-1 |
| chr6_2 | CDS | 16760383 | 16760724 | 16760383 | ID=Msa0911090-mRNA-1:cds;Parent=Msa0911090-mRNA-1 |
| Gene Sequence |
| Protein sequence |
