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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0165540 | XP_003589210.1 | 91.579 | 95 | 8 | 0 | 1 | 95 | 1 | 95 | 2.56e-57 | 181 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0165540 | G7I3M6 | 91.579 | 95 | 8 | 0 | 1 | 95 | 1 | 95 | 1.22e-57 | 181 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0026470 | Msa0165540 | 0.923372 | 2.895730e-89 | -8.615850e-47 |
| Msa0026490 | Msa0165540 | 0.806808 | 6.870732e-50 | -8.615850e-47 |
| Msa0145410 | Msa0165540 | 0.807140 | 5.846167e-50 | -8.615850e-47 |
| Msa0165540 | Msa1043790 | 0.824177 | 9.295675e-54 | -8.615850e-47 |
| Msa0165540 | Msa1043810 | 0.810920 | 9.066023e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0165540 | MtrunA17_Chr1g0153601 | 91.579 | 95 | 8 | 0 | 1 | 95 | 1 | 95 | 2.35e-61 | 181 |
| Msa0165540 | MtrunA17_Chr1g0153581 | 89.474 | 95 | 10 | 0 | 1 | 95 | 1 | 95 | 1.55e-58 | 174 |
| Msa0165540 | MtrunA17_Chr1g0153561 | 83.158 | 95 | 16 | 0 | 1 | 95 | 1 | 95 | 7.45e-55 | 165 |
| Msa0165540 | MtrunA17_Chr1g0153611 | 65.957 | 94 | 31 | 1 | 1 | 94 | 1 | 93 | 1.75e-39 | 126 |
| Msa0165540 | MtrunA17_Chr1g0153551 | 47.312 | 93 | 44 | 1 | 1 | 88 | 1 | 93 | 4.31e-20 | 77.4 |
| Msa0165540 | MtrunA17_Chr1g0153541 | 40.777 | 103 | 53 | 1 | 1 | 95 | 1 | 103 | 1.97e-17 | 70.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATCTCATTAGCCGTGGTTT+TGG | 0.301908 | 1_4:-46147478 | Msa0165540:CDS |
| TGTTCCTTTCGAAGTTGATT+TGG | 0.344741 | 1_4:+46147686 | None:intergenic |
| AGCTTTCATGAAACAAAATA+TGG | 0.357016 | 1_4:+46147555 | None:intergenic |
| ACTGATTTGTCCGTCTTTGT+TGG | 0.364609 | 1_4:+46147528 | None:intergenic |
| CAAAATATGGCTCTCCATCC+AGG | 0.411421 | 1_4:+46147568 | None:intergenic |
| TGGTCCATAGGCACCGGCTT+TGG | 0.436522 | 1_4:+46147706 | None:intergenic |
| CAAACCAAAGCCGGTGCCTA+TGG | 0.455404 | 1_4:-46147710 | Msa0165540:CDS |
| AATGCCTGTGTTTATCCCTT+CGG | 0.462697 | 1_4:-46147734 | Msa0165540:CDS |
| ACCGGCTTTGGTTTGTCCGA+AGG | 0.472684 | 1_4:+46147718 | None:intergenic |
| CCGGCTTTGGTTTGTCCGAA+GGG | 0.495436 | 1_4:+46147719 | None:intergenic |
| TAGGTTCTTACTACCCTGGA+TGG | 0.528156 | 1_4:-46147582 | Msa0165540:CDS |
| TCGAAGTTGATTTGGTCCAT+AGG | 0.530320 | 1_4:+46147694 | None:intergenic |
| GATTTAGGTTCTTACTACCC+TGG | 0.543944 | 1_4:-46147586 | Msa0165540:CDS |
| CCCTTCGGACAAACCAAAGC+CGG | 0.550311 | 1_4:-46147719 | Msa0165540:CDS |
| TTGATTTGGTCCATAGGCAC+CGG | 0.550954 | 1_4:+46147700 | None:intergenic |
| AAAATATGGCTCTCCATCCA+GGG | 0.594858 | 1_4:+46147569 | None:intergenic |
| TGGACCAAATCAACTTCGAA+AGG | 0.599482 | 1_4:-46147690 | Msa0165540:CDS |
| GTTGATTATCTCATTAGCCG+TGG | 0.613024 | 1_4:-46147484 | Msa0165540:CDS |
| AAAGCTGATGCCAACAAAGA+CGG | 0.620958 | 1_4:-46147538 | Msa0165540:CDS |
| AAGGCAGATATCAATAAAGA+CGG | 0.625573 | 1_4:-46147646 | Msa0165540:CDS |
| AACAAAGACGGACAAATCAG+TGG | 0.638335 | 1_4:-46147526 | Msa0165540:CDS |
| GTTAGTTCTTGCCAAAACCA+CGG | 0.639839 | 1_4:+46147467 | None:intergenic |
| TTGTCCGAAGGGATAAACAC+AGG | 0.660183 | 1_4:+46147730 | None:intergenic |
| AGACGGACAAATCAGTGGCG+AGG | 0.670203 | 1_4:-46147521 | Msa0165540:CDS |
| TAAAGACGGTCGTTACACAA+AGG | 0.678917 | 1_4:-46147632 | Msa0165540:CDS |
| AGACGGTCGTTACACAAAGG+AGG | 0.680084 | 1_4:-46147629 | Msa0165540:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAGGAACATTATCGAAAAAT+TGG | - | chr1_4:46147530-46147549 | Msa0165540:CDS | 25.0% |
| ! | CATTATCGAAAAATTGGAAA+AGG | - | chr1_4:46147536-46147555 | Msa0165540:CDS | 25.0% |
| !!! | AAAAAAGCTCTAAAGGATTT+AGG | - | chr1_4:46147600-46147619 | Msa0165540:CDS | 25.0% |
| ! | AGCTTTCATGAAACAAAATA+TGG | + | chr1_4:46147649-46147668 | None:intergenic | 25.0% |
| AAGGCAGATATCAATAAAGA+CGG | - | chr1_4:46147555-46147574 | Msa0165540:CDS | 30.0% | |
| ! | TGTTCCTTTCGAAGTTGATT+TGG | + | chr1_4:46147518-46147537 | None:intergenic | 35.0% |
| ! | GGAACTCAAAAAAGCTCTAA+AGG | - | chr1_4:46147593-46147612 | Msa0165540:CDS | 35.0% |
| !! | TCGAAGTTGATTTGGTCCAT+AGG | + | chr1_4:46147510-46147529 | None:intergenic | 40.0% |
| TGGACCAAATCAACTTCGAA+AGG | - | chr1_4:46147511-46147530 | Msa0165540:CDS | 40.0% | |
| TAAAGACGGTCGTTACACAA+AGG | - | chr1_4:46147569-46147588 | Msa0165540:CDS | 40.0% | |
| ! | GATTTAGGTTCTTACTACCC+TGG | - | chr1_4:46147615-46147634 | Msa0165540:CDS | 40.0% |
| AAAATATGGCTCTCCATCCA+GGG | + | chr1_4:46147635-46147654 | None:intergenic | 40.0% | |
| AAAGCTGATGCCAACAAAGA+CGG | - | chr1_4:46147663-46147682 | Msa0165540:CDS | 40.0% | |
| !! | ACTGATTTGTCCGTCTTTGT+TGG | + | chr1_4:46147676-46147695 | None:intergenic | 40.0% |
| AACAAAGACGGACAAATCAG+TGG | - | chr1_4:46147675-46147694 | Msa0165540:CDS | 40.0% | |
| GTTGATTATCTCATTAGCCG+TGG | - | chr1_4:46147717-46147736 | Msa0165540:CDS | 40.0% | |
| ! | TATCTCATTAGCCGTGGTTT+TGG | - | chr1_4:46147723-46147742 | Msa0165540:CDS | 40.0% |
| TTGTCCGAAGGGATAAACAC+AGG | + | chr1_4:46147474-46147493 | None:intergenic | 45.0% | |
| !! | TTGATTTGGTCCATAGGCAC+CGG | + | chr1_4:46147504-46147523 | None:intergenic | 45.0% |
| TAGGTTCTTACTACCCTGGA+TGG | - | chr1_4:46147619-46147638 | Msa0165540:CDS | 45.0% | |
| CAAAATATGGCTCTCCATCC+AGG | + | chr1_4:46147636-46147655 | None:intergenic | 45.0% | |
| AGACGGTCGTTACACAAAGG+AGG | - | chr1_4:46147572-46147591 | Msa0165540:CDS | 50.0% | |
| !! | CCGGCTTTGGTTTGTCCGAA+GGG | + | chr1_4:46147485-46147504 | None:intergenic | 55.0% |
| CCCTTCGGACAAACCAAAGC+CGG | - | chr1_4:46147482-46147501 | Msa0165540:CDS | 55.0% | |
| !! | ACCGGCTTTGGTTTGTCCGA+AGG | + | chr1_4:46147486-46147505 | None:intergenic | 55.0% |
| CAAACCAAAGCCGGTGCCTA+TGG | - | chr1_4:46147491-46147510 | Msa0165540:CDS | 55.0% | |
| AGACGGACAAATCAGTGGCG+AGG | - | chr1_4:46147680-46147699 | Msa0165540:CDS | 55.0% | |
| !! | TGGTCCATAGGCACCGGCTT+TGG | + | chr1_4:46147498-46147517 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 46147468 | 46147755 | 46147468 | ID=Msa0165540;Name=Msa0165540 |
| chr1_4 | mRNA | 46147468 | 46147755 | 46147468 | ID=Msa0165540-mRNA-1;Parent=Msa0165540;Name=Msa0165540-mRNA-1;_AED=0.31;_eAED=0.31;_QI=0|-1|0|1|-1|1|1|0|95 |
| chr1_4 | exon | 46147468 | 46147755 | 46147468 | ID=Msa0165540-mRNA-1:exon:13241;Parent=Msa0165540-mRNA-1 |
| chr1_4 | CDS | 46147468 | 46147755 | 46147468 | ID=Msa0165540-mRNA-1:cds;Parent=Msa0165540-mRNA-1 |
| Gene Sequence |
| Protein sequence |
