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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1011840 | XP_013447886.1 | 88.321 | 137 | 5 | 1 | 1 | 126 | 1 | 137 | 2.12e-78 | 237 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1011840 | A0A072TYJ6 | 88.321 | 137 | 5 | 1 | 1 | 126 | 1 | 137 | 1.01e-78 | 237 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1011790 | Msa1011840 | 0.872654 | 2.692752e-67 | -8.615850e-47 |
| Msa1011820 | Msa1011840 | 0.987278 | 1.098028e-169 | -8.615850e-47 |
| Msa1011840 | Msa1011860 | 0.877833 | 4.575955e-69 | -8.615850e-47 |
| Msa1011840 | Msa1053290 | 0.847809 | 9.143364e-60 | -8.615850e-47 |
| Msa1011840 | Msa1053330 | 0.888199 | 7.294847e-73 | -8.615850e-47 |
| Msa1011840 | Msa1053340 | 0.826579 | 2.510500e-54 | -8.615850e-47 |
| Msa1011840 | Msa1095410 | 0.809401 | 1.927037e-50 | -8.615850e-47 |
| Msa1011840 | Msa1142590 | 0.825904 | 3.634259e-54 | -8.615850e-47 |
| Msa1011840 | Msa1142600 | 0.802828 | 4.661978e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1011840 | MtrunA17_Chr7g0223391 | 88.321 | 137 | 5 | 1 | 1 | 126 | 18 | 154 | 3.63e-82 | 237 |
| Msa1011840 | MtrunA17_Chr7g0223401 | 83.212 | 137 | 12 | 1 | 1 | 126 | 6 | 142 | 4.00e-77 | 224 |
| Msa1011840 | MtrunA17_Chr8g0356181 | 43.571 | 140 | 65 | 1 | 1 | 126 | 1 | 140 | 1.35e-34 | 116 |
| Msa1011840 | MtrunA17_Chr1g0190921 | 31.452 | 124 | 80 | 1 | 1 | 124 | 1 | 119 | 4.90e-12 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1011840 | AT2G44310.1 | 45.255 | 137 | 62 | 1 | 1 | 124 | 1 | 137 | 1.60e-35 | 119 |
Find 26 sgRNAs with CRISPR-Local
Find 27 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGATGAGTGTAGAAATTT+TGG | 0.159822 | 7_1:-16641714 | None:intergenic |
| CATTTAAGCAGCCAATTTAC+TGG | 0.249329 | 7_1:+16641349 | None:intergenic |
| CGGTTGATCTTGAAGAATTC+AGG | 0.278025 | 7_1:-16641448 | Msa1011840:CDS |
| TAAACACGAGCAAGCTCATT+TGG | 0.308059 | 7_1:+16641512 | None:intergenic |
| TGAAAGAGAGTCCAGTAAAT+TGG | 0.375239 | 7_1:-16641360 | Msa1011840:CDS |
| TAAATGCTTCTTCATCTTCA+AGG | 0.379890 | 7_1:+16641669 | None:intergenic |
| CAGTTTGATCACAACTTGAA+TGG | 0.425360 | 7_1:-16641473 | Msa1011840:CDS |
| CTTCTTCATCTTCAAGGAAG+TGG | 0.447415 | 7_1:+16641675 | None:intergenic |
| TTAATAGCTCGGTAGGAAAT+CGG | 0.454217 | 7_1:-16641649 | Msa1011840:CDS |
| CTCCTTCAACATCTCATCAT+AGG | 0.454389 | 7_1:+16641589 | None:intergenic |
| AAACACGAGCAAGCTCATTT+GGG | 0.456333 | 7_1:+16641513 | None:intergenic |
| CTCCTATGATGAGATGTTGA+AGG | 0.467641 | 7_1:-16641591 | Msa1011840:CDS |
| GAAGGAGCTCAAGAGCTTGA+GGG | 0.520375 | 7_1:-16641573 | Msa1011840:CDS |
| GCTTGCAATGGCAGATGGGA+TGG | 0.521128 | 7_1:-16641405 | Msa1011840:CDS |
| GAAGCATTTAATAGCTCGGT+AGG | 0.541215 | 7_1:-16641656 | Msa1011840:CDS |
| ATGATGCTTGCAATGGCAGA+TGG | 0.545635 | 7_1:-16641410 | Msa1011840:CDS |
| TGAAGAAGCATTTAATAGCT+CGG | 0.548389 | 7_1:-16641660 | Msa1011840:CDS |
| CTTGCAATGGCAGATGGGAT+GGG | 0.557101 | 7_1:-16641404 | Msa1011840:CDS |
| TGAAGGAGCTCAAGAGCTTG+AGG | 0.558625 | 7_1:-16641574 | Msa1011840:CDS |
| AACACACTTTGGTATTGATG+TGG | 0.581840 | 7_1:-16641543 | Msa1011840:CDS |
| TTCAAGGAAGTGGACAATTG+TGG | 0.596143 | 7_1:+16641685 | None:intergenic |
| TAAGCAAATGATGCTTGCAA+TGG | 0.606338 | 7_1:-16641417 | Msa1011840:CDS |
| TGATGCTTGCAATGGCAGAT+GGG | 0.619568 | 7_1:-16641409 | Msa1011840:CDS |
| TGATCACAACTTGAATGGCA+CGG | 0.635410 | 7_1:-16641468 | Msa1011840:CDS |
| TGATCTTGAAGAATTCAGGA+AGG | 0.643588 | 7_1:-16641444 | Msa1011840:CDS |
| TGCCTCGACACAAATAACGA+CGG | 0.718573 | 7_1:-16641620 | Msa1011840:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATGAGTGTAGAAATTTTGGA+TGG | - | chr7_1:16641352-16641371 | Msa1011840:CDS | 30.0% |
| TAAATGCTTCTTCATCTTCA+AGG | + | chr7_1:16641396-16641415 | None:intergenic | 30.0% | |
| !! | TGAAGAAGCATTTAATAGCT+CGG | - | chr7_1:16641402-16641421 | Msa1011840:CDS | 30.0% |
| TTAATAGCTCGGTAGGAAAT+CGG | - | chr7_1:16641413-16641432 | Msa1011840:CDS | 35.0% | |
| !!! | AGGGTTTTTGAAACACACTT+TGG | - | chr7_1:16641508-16641527 | Msa1011840:CDS | 35.0% |
| !! | AACACACTTTGGTATTGATG+TGG | - | chr7_1:16641519-16641538 | Msa1011840:CDS | 35.0% |
| CAGTTTGATCACAACTTGAA+TGG | - | chr7_1:16641589-16641608 | Msa1011840:CDS | 35.0% | |
| TGATCTTGAAGAATTCAGGA+AGG | - | chr7_1:16641618-16641637 | Msa1011840:CDS | 35.0% | |
| TAAGCAAATGATGCTTGCAA+TGG | - | chr7_1:16641645-16641664 | Msa1011840:CDS | 35.0% | |
| TGAAAGAGAGTCCAGTAAAT+TGG | - | chr7_1:16641702-16641721 | Msa1011840:CDS | 35.0% | |
| TTCAAGGAAGTGGACAATTG+TGG | + | chr7_1:16641380-16641399 | None:intergenic | 40.0% | |
| CTTCTTCATCTTCAAGGAAG+TGG | + | chr7_1:16641390-16641409 | None:intergenic | 40.0% | |
| ! | GAAGCATTTAATAGCTCGGT+AGG | - | chr7_1:16641406-16641425 | Msa1011840:CDS | 40.0% |
| CTCCTATGATGAGATGTTGA+AGG | - | chr7_1:16641471-16641490 | Msa1011840:CDS | 40.0% | |
| CTCCTTCAACATCTCATCAT+AGG | + | chr7_1:16641476-16641495 | None:intergenic | 40.0% | |
| AAACACGAGCAAGCTCATTT+GGG | + | chr7_1:16641552-16641571 | None:intergenic | 40.0% | |
| TAAACACGAGCAAGCTCATT+TGG | + | chr7_1:16641553-16641572 | None:intergenic | 40.0% | |
| TGATCACAACTTGAATGGCA+CGG | - | chr7_1:16641594-16641613 | Msa1011840:CDS | 40.0% | |
| CGGTTGATCTTGAAGAATTC+AGG | - | chr7_1:16641614-16641633 | Msa1011840:CDS | 40.0% | |
| TGCCTCGACACAAATAACGA+CGG | - | chr7_1:16641442-16641461 | Msa1011840:CDS | 45.0% | |
| ATGATGCTTGCAATGGCAGA+TGG | - | chr7_1:16641652-16641671 | Msa1011840:CDS | 45.0% | |
| TGATGCTTGCAATGGCAGAT+GGG | - | chr7_1:16641653-16641672 | Msa1011840:CDS | 45.0% | |
| GACCGTCGTTATTTGTGTCG+AGG | + | chr7_1:16641447-16641466 | None:intergenic | 50.0% | |
| TGAAGGAGCTCAAGAGCTTG+AGG | - | chr7_1:16641488-16641507 | Msa1011840:CDS | 50.0% | |
| GAAGGAGCTCAAGAGCTTGA+GGG | - | chr7_1:16641489-16641508 | Msa1011840:CDS | 50.0% | |
| CTTGCAATGGCAGATGGGAT+GGG | - | chr7_1:16641658-16641677 | Msa1011840:CDS | 50.0% | |
| GCTTGCAATGGCAGATGGGA+TGG | - | chr7_1:16641657-16641676 | Msa1011840:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 16641352 | 16641732 | 16641352 | ID=Msa1011840;Name=Msa1011840 |
| chr7_1 | mRNA | 16641352 | 16641732 | 16641352 | ID=Msa1011840-mRNA-1;Parent=Msa1011840;Name=Msa1011840-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|126 |
| chr7_1 | exon | 16641352 | 16641732 | 16641352 | ID=Msa1011840-mRNA-1:exon:4233;Parent=Msa1011840-mRNA-1 |
| chr7_1 | CDS | 16641352 | 16641732 | 16641352 | ID=Msa1011840-mRNA-1:cds;Parent=Msa1011840-mRNA-1 |
| Gene Sequence |
| Protein sequence |
