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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0711340 | XP_039687938.1 | 87.671 | 73 | 9 | 0 | 1 | 73 | 105 | 177 | 1.46e-24 | 102 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0711340 | A0A072VIK8 | 89.041 | 73 | 8 | 0 | 1 | 73 | 43 | 115 | 1.23e-24 | 99.8 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0711340 | Msa0751790 | 0.814535 | 1.466518e-51 | -8.615850e-47 |
| Msa0711340 | Msa0751800 | 0.819780 | 9.701797e-53 | -8.615850e-47 |
| Msa0711340 | Msa0794260 | 0.839948 | 1.167115e-57 | -8.615850e-47 |
| Msa0711340 | Msa0831970 | 0.905146 | 5.840907e-80 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0711340 | MtrunA17_Chr1g0176161 | 90.411 | 73 | 7 | 0 | 1 | 73 | 438 | 510 | 3.49e-24 | 94.4 |
| Msa0711340 | MtrunA17_Chr4g0029871 | 91.781 | 73 | 6 | 0 | 1 | 73 | 97 | 169 | 6.62e-22 | 84.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTCATTTCCTCTGCCTGTT+TGG | 0.282668 | 5_1:+3228215 | None:intergenic |
| AAGAATTGAAGAATGAGTTA+AGG | 0.346930 | 5_1:-3228248 | Msa0711340:CDS |
| TCAAAAGGATGGCTACAAAA+AGG | 0.356867 | 5_1:-3228188 | Msa0711340:CDS |
| AGAATTGAAGAATGAGTTAA+GGG | 0.389857 | 5_1:-3228247 | Msa0711340:CDS |
| AATGATACAACGAATGAATC+AGG | 0.406740 | 5_1:-3228307 | None:intergenic |
| AAGGGAATTGCTGGCCAAAC+AGG | 0.407225 | 5_1:-3228229 | Msa0711340:CDS |
| GAATGAGTTAAGGGAATTGC+TGG | 0.411267 | 5_1:-3228238 | Msa0711340:CDS |
| CATTGTCGTCGTCATGTGTT+CGG | 0.438800 | 5_1:+3228088 | None:intergenic |
| TCAGGAGTTGCAATCTCAAA+AGG | 0.487585 | 5_1:-3228289 | Msa0711340:CDS |
| AGGAAATGAGAAAATTCAAA+AGG | 0.504200 | 5_1:-3228203 | Msa0711340:CDS |
| GGATGGGTGGCATGAAGAGT+AGG | 0.508484 | 5_1:-3228167 | Msa0711340:CDS |
| GCAATCTCAAAAGGAGGCGT+TGG | 0.538828 | 5_1:-3228280 | Msa0711340:CDS |
| AATGAGAAAATTCAAAAGGA+TGG | 0.547153 | 5_1:-3228199 | Msa0711340:CDS |
| TGATGATGAGGACGAGGAGA+GGG | 0.560715 | 5_1:-3228067 | Msa0711340:CDS |
| GACGGTGATGATTGACTCGA+TGG | 0.561145 | 5_1:+3228123 | None:intergenic |
| ATTGCTGGCCAAACAGGCAG+AGG | 0.565425 | 5_1:-3228223 | Msa0711340:CDS |
| CGACAATGATGATGAGGACG+AGG | 0.579199 | 5_1:-3228073 | Msa0711340:CDS |
| GTTCGGTCTTCTTGAATCGA+CGG | 0.592079 | 5_1:+3228105 | None:intergenic |
| ATGATGATGAGGACGAGGAG+AGG | 0.604569 | 5_1:-3228068 | Msa0711340:CDS |
| TGACGACGACAATGATGATG+AGG | 0.642696 | 5_1:-3228079 | Msa0711340:CDS |
| GGAGTTGCAATCTCAAAAGG+AGG | 0.669723 | 5_1:-3228286 | Msa0711340:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAGAATTGAAGAATGAGTTA+AGG | - | chr5_1:3228093-3228112 | Msa0711340:CDS | 25.0% |
| ! | AGAATTGAAGAATGAGTTAA+GGG | - | chr5_1:3228094-3228113 | Msa0711340:CDS | 25.0% |
| ! | AGGAAATGAGAAAATTCAAA+AGG | - | chr5_1:3228138-3228157 | Msa0711340:CDS | 25.0% |
| ! | AATGAGAAAATTCAAAAGGA+TGG | - | chr5_1:3228142-3228161 | Msa0711340:CDS | 25.0% |
| TCAAAAGGATGGCTACAAAA+AGG | - | chr5_1:3228153-3228172 | Msa0711340:CDS | 35.0% | |
| TCAGGAGTTGCAATCTCAAA+AGG | - | chr5_1:3228052-3228071 | Msa0711340:CDS | 40.0% | |
| GAATGAGTTAAGGGAATTGC+TGG | - | chr5_1:3228103-3228122 | Msa0711340:CDS | 40.0% | |
| AAGGATGGCTACAAAAAGGA+TGG | - | chr5_1:3228157-3228176 | Msa0711340:CDS | 40.0% | |
| AGGATGGCTACAAAAAGGAT+GGG | - | chr5_1:3228158-3228177 | Msa0711340:CDS | 40.0% | |
| GGAGTTGCAATCTCAAAAGG+AGG | - | chr5_1:3228055-3228074 | Msa0711340:CDS | 45.0% | |
| TCTCATTTCCTCTGCCTGTT+TGG | + | chr5_1:3228129-3228148 | None:intergenic | 45.0% | |
| ATGGCTACAAAAAGGATGGG+TGG | - | chr5_1:3228161-3228180 | Msa0711340:CDS | 45.0% | |
| GTTCGGTCTTCTTGAATCGA+CGG | + | chr5_1:3228239-3228258 | None:intergenic | 45.0% | |
| CATTGTCGTCGTCATGTGTT+CGG | + | chr5_1:3228256-3228275 | None:intergenic | 45.0% | |
| ! | TGACGACGACAATGATGATG+AGG | - | chr5_1:3228262-3228281 | Msa0711340:CDS | 45.0% |
| ! | GCAATCTCAAAAGGAGGCGT+TGG | - | chr5_1:3228061-3228080 | Msa0711340:CDS | 50.0% |
| AAGGGAATTGCTGGCCAAAC+AGG | - | chr5_1:3228112-3228131 | Msa0711340:CDS | 50.0% | |
| !! | GACGGTGATGATTGACTCGA+TGG | + | chr5_1:3228221-3228240 | None:intergenic | 50.0% |
| ! | CGACAATGATGATGAGGACG+AGG | - | chr5_1:3228268-3228287 | Msa0711340:CDS | 50.0% |
| ! | ATGATGATGAGGACGAGGAG+AGG | - | chr5_1:3228273-3228292 | Msa0711340:CDS | 50.0% |
| ! | TGATGATGAGGACGAGGAGA+GGG | - | chr5_1:3228274-3228293 | Msa0711340:CDS | 50.0% |
| ATTGCTGGCCAAACAGGCAG+AGG | - | chr5_1:3228118-3228137 | Msa0711340:CDS | 55.0% | |
| GGATGGGTGGCATGAAGAGT+AGG | - | chr5_1:3228174-3228193 | Msa0711340:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 3228047 | 3228316 | 3228047 | ID=Msa0711340;Name=Msa0711340 |
| chr5_1 | mRNA | 3228047 | 3228316 | 3228047 | ID=Msa0711340-mRNA-1;Parent=Msa0711340;Name=Msa0711340-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|89 |
| chr5_1 | exon | 3228047 | 3228316 | 3228047 | ID=Msa0711340-mRNA-1:exon:1216;Parent=Msa0711340-mRNA-1 |
| chr5_1 | CDS | 3228047 | 3228316 | 3228047 | ID=Msa0711340-mRNA-1:cds;Parent=Msa0711340-mRNA-1 |
| Gene Sequence |
| Protein sequence |
