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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405950 | XP_003602442.1 | 97.273 | 110 | 3 | 0 | 1 | 110 | 8 | 117 | 4.16e-69 | 213 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405950 | sp|Q9FIR9|LSU2_ARATH | 49.495 | 99 | 35 | 3 | 5 | 100 | 1 | 87 | 7.15e-22 | 85.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405950 | G7J9Q1 | 97.273 | 110 | 3 | 0 | 1 | 110 | 8 | 117 | 1.99e-69 | 213 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0650620 | Msa1405950 | 0.806554 | 7.776266e-50 | -8.615850e-47 |
| Msa1310660 | Msa1405950 | 0.820139 | 8.029528e-53 | -8.615850e-47 |
| Msa0370310 | Msa1405950 | 0.805162 | 1.525233e-49 | -8.615850e-47 |
| Msa0438770 | Msa1405950 | 0.968340 | 1.543945e-128 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405950 | MtrunA17_Chr3g0128351 | 97.273 | 110 | 3 | 0 | 1 | 110 | 8 | 117 | 3.83e-73 | 213 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405950 | AT5G24660.1 | 49.495 | 99 | 35 | 3 | 5 | 100 | 1 | 87 | 7.27e-23 | 85.5 |
| Msa1405950 | AT5G24655.1 | 48.485 | 99 | 36 | 3 | 5 | 100 | 1 | 87 | 3.65e-21 | 80.9 |
| Msa1405950 | AT3G49580.1 | 54.667 | 75 | 27 | 1 | 23 | 97 | 17 | 84 | 3.37e-20 | 78.6 |
| Msa1405950 | AT3G49570.1 | 52.083 | 96 | 37 | 2 | 5 | 100 | 1 | 87 | 2.62e-19 | 76.3 |
| Msa1405950 | AT3G49580.2 | 73.684 | 38 | 10 | 0 | 60 | 97 | 28 | 65 | 2.66e-13 | 60.5 |
Find 25 sgRNAs with CRISPR-Local
Find 25 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAAGAGTTGAAGGAGAGT+AGG | 0.397427 | tig0023174:-71372 | Msa1405950:CDS |
| GCTGCGCGTGGCGGAGGAAG+CGG | 0.401471 | tig0023174:-71302 | Msa1405950:CDS |
| GAAAGAGTTGAAGGAGAGTA+GGG | 0.413600 | tig0023174:-71371 | Msa1405950:CDS |
| CTTCTCTTCAGCTCCGACTC+CGG | 0.438820 | tig0023174:+71409 | None:intergenic |
| CGATCGTATTGTTTCTCTGA+TGG | 0.452561 | tig0023174:-71212 | Msa1405950:CDS |
| GGAAAGGCTGCGCGTGGCGG+AGG | 0.464821 | tig0023174:-71308 | Msa1405950:CDS |
| TCAGCTTGAGAAAGAGTTGA+AGG | 0.470244 | tig0023174:-71380 | Msa1405950:CDS |
| ATGCTCACAGCTCGGAGAGC+TGG | 0.481510 | tig0023174:-71269 | Msa1405950:CDS |
| GTGGGAAAGGCTGCGCGTGG+CGG | 0.509515 | tig0023174:-71311 | Msa1405950:CDS |
| AGTTACAGAGCGCGTGGGAA+AGG | 0.511401 | tig0023174:-71324 | Msa1405950:CDS |
| TGCGGTGCCGGTGCCGGAGT+CGG | 0.513302 | tig0023174:-71422 | Msa1405950:CDS |
| GTGCCGATCACTGCCATCAT+CGG | 0.537295 | tig0023174:+71469 | None:intergenic |
| CGCGTGGGAAAGGCTGCGCG+TGG | 0.538078 | tig0023174:-71314 | Msa1405950:CDS |
| TTCAGCTCCGACTCCGGCAC+CGG | 0.539404 | tig0023174:+71415 | None:intergenic |
| TCACCGATGATGGCAGTGAT+CGG | 0.571734 | tig0023174:-71472 | None:intergenic |
| ATGATGGCAGTGATCGGCAC+CGG | 0.580016 | tig0023174:-71466 | Msa1405950:CDS |
| GCGCGTGGCGGAGGAAGCGG+AGG | 0.588927 | tig0023174:-71299 | Msa1405950:CDS |
| GACGGCAGTTACAGAGCGCG+TGG | 0.590880 | tig0023174:-71330 | Msa1405950:CDS |
| AGAGAGAAGAGCAAATGAGA+CGG | 0.606848 | tig0023174:-71348 | Msa1405950:CDS |
| TGGCGGAGGAAGCGGAGGAG+AGG | 0.608333 | tig0023174:-71294 | Msa1405950:CDS |
| ATGGCAGTGATCGGCACCGG+AGG | 0.608782 | tig0023174:-71463 | Msa1405950:CDS |
| GAGAGGTTATGCTCACAGCT+CGG | 0.627892 | tig0023174:-71277 | Msa1405950:CDS |
| ACGGCAGTTACAGAGCGCGT+GGG | 0.692882 | tig0023174:-71329 | Msa1405950:CDS |
| CAAAACCAATCACAACGAGG+TGG | 0.696964 | tig0023174:+71147 | None:intergenic |
| ACACAAAACCAATCACAACG+AGG | 0.794409 | tig0023174:+71144 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAAAGAGTCTAAAAATG+CGG | - | tig0023174:71182-71201 | Msa1405950:CDS | 20.0% |
| !!! | TTTAGACTCTTTTTTTCCTC+CGG | + | tig0023174:71178-71197 | None:intergenic | 30.0% |
| TCAGCTTGAGAAAGAGTTGA+AGG | - | tig0023174:71242-71261 | Msa1405950:CDS | 40.0% | |
| AGAAAGAGTTGAAGGAGAGT+AGG | - | tig0023174:71250-71269 | Msa1405950:CDS | 40.0% | |
| GAAAGAGTTGAAGGAGAGTA+GGG | - | tig0023174:71251-71270 | Msa1405950:CDS | 40.0% | |
| AGAGAGAAGAGCAAATGAGA+CGG | - | tig0023174:71274-71293 | Msa1405950:CDS | 40.0% | |
| ! | CGATCGTATTGTTTCTCTGA+TGG | - | tig0023174:71410-71429 | Msa1405950:CDS | 40.0% |
| AGAGTCTAAAAATGCGGTGC+CGG | - | tig0023174:71188-71207 | Msa1405950:CDS | 45.0% | |
| GAGAGGTTATGCTCACAGCT+CGG | - | tig0023174:71345-71364 | Msa1405950:CDS | 50.0% | |
| ATGATGGCAGTGATCGGCAC+CGG | - | tig0023174:71156-71175 | Msa1405950:CDS | 55.0% | |
| !! | TAAAAATGCGGTGCCGGTGC+CGG | - | tig0023174:71194-71213 | Msa1405950:CDS | 55.0% |
| CTTCTCTTCAGCTCCGACTC+CGG | + | tig0023174:71216-71235 | None:intergenic | 55.0% | |
| AGTTACAGAGCGCGTGGGAA+AGG | - | tig0023174:71298-71317 | Msa1405950:CDS | 55.0% | |
| ACGGCAGTTACAGAGCGCGT+GGG | - | tig0023174:71293-71312 | Msa1405950:CDS | 60.0% | |
| ATGCTCACAGCTCGGAGAGC+TGG | - | tig0023174:71353-71372 | Msa1405950:CDS | 60.0% | |
| ! | ATGGCAGTGATCGGCACCGG+AGG | - | tig0023174:71159-71178 | Msa1405950:CDS | 65.0% |
| TTCAGCTCCGACTCCGGCAC+CGG | + | tig0023174:71210-71229 | None:intergenic | 65.0% | |
| GACGGCAGTTACAGAGCGCG+TGG | - | tig0023174:71292-71311 | Msa1405950:CDS | 65.0% | |
| GTGGGAAAGGCTGCGCGTGG+CGG | - | tig0023174:71311-71330 | Msa1405950:CDS | 70.0% | |
| TGGCGGAGGAAGCGGAGGAG+AGG | - | tig0023174:71328-71347 | Msa1405950:CDS | 70.0% | |
| !! | TGCGGTGCCGGTGCCGGAGT+CGG | - | tig0023174:71200-71219 | Msa1405950:CDS | 75.0% |
| CGCGTGGGAAAGGCTGCGCG+TGG | - | tig0023174:71308-71327 | Msa1405950:CDS | 75.0% | |
| GGAAAGGCTGCGCGTGGCGG+AGG | - | tig0023174:71314-71333 | Msa1405950:CDS | 75.0% | |
| ! | GCTGCGCGTGGCGGAGGAAG+CGG | - | tig0023174:71320-71339 | Msa1405950:CDS | 75.0% |
| !! | GCGCGTGGCGGAGGAAGCGG+AGG | - | tig0023174:71323-71342 | Msa1405950:CDS | 80.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0023174 | gene | 71156 | 71488 | 71156 | ID=Msa1405950;Name=Msa1405950 |
| tig0023174 | mRNA | 71156 | 71488 | 71156 | ID=Msa1405950-mRNA-1;Parent=Msa1405950;Name=Msa1405950-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|-1|0|1|-1|1|1|0|110 |
| tig0023174 | exon | 71156 | 71488 | 71156 | ID=Msa1405950-mRNA-1:exon:24313;Parent=Msa1405950-mRNA-1 |
| tig0023174 | CDS | 71156 | 71488 | 71156 | ID=Msa1405950-mRNA-1:cds;Parent=Msa1405950-mRNA-1 |
| Gene Sequence |
| Protein sequence |
