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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0475660 | XP_013467909.2 | 82.353 | 68 | 6 | 1 | 1 | 62 | 38 | 105 | 1.49e-28 | 110 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0475660 | A0A072V9E3 | 77.941 | 68 | 9 | 1 | 1 | 62 | 21 | 88 | 8.72e-29 | 110 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0475660 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0475660 | Msa0519260 | 0.931490 | 3.498996e-94 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0475660 | MtrunA17_Chr3g0082121 | 70.588 | 68 | 14 | 1 | 1 | 62 | 47 | 114 | 2.68e-23 | 93.6 |
| Msa0475660 | MtrunA17_Chr5g0401121 | 61.765 | 68 | 20 | 1 | 1 | 62 | 60 | 127 | 5.99e-19 | 77.4 |
| Msa0475660 | MtrunA17_Chr6g0458391 | 55.769 | 52 | 23 | 0 | 1 | 52 | 229 | 280 | 2.25e-15 | 70.9 |
| Msa0475660 | MtrunA17_Chr1g0203721 | 39.394 | 66 | 34 | 1 | 3 | 62 | 69 | 134 | 6.26e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 17 sgRNAs with CRISPR-Local
Find 20 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTGATATTCATCGAGAATA+TGG | 0.221744 | 3_3:+79004310 | Msa0475660:CDS |
| AATGATTACAGTAAAAGAAT+TGG | 0.319753 | 3_3:+79004286 | Msa0475660:CDS |
| TCTTACGTGGACAATTGATA+TGG | 0.322055 | 3_3:-79004504 | None:intergenic |
| CTAAAAGACGTTATAAATCT+TGG | 0.340563 | 3_3:+79004527 | Msa0475660:CDS |
| GGAAATAAAAGTATAATAGA+TGG | 0.370458 | 3_3:+79004331 | Msa0475660:CDS |
| TGGTTTAGTACAATCGTTAC+CGG | 0.434065 | 3_3:+79004609 | Msa0475660:CDS |
| ATTCCACTTGATTCTCCATC+CGG | 0.489687 | 3_3:-79004470 | None:intergenic |
| GAAGTTTGAATCTGAGGCGG+CGG | 0.566137 | 3_3:+79004249 | Msa0475660:CDS |
| GGGAATGAAGTTTGAATCTG+AGG | 0.567573 | 3_3:+79004243 | None:intergenic |
| GGATGGAGAATCAAGTGGAA+TGG | 0.607473 | 3_3:+79004472 | Msa0475660:CDS |
| TCTGCTCTAGACTCCGCCGT+CGG | 0.612404 | 3_3:-79004421 | None:intergenic |
| TATCCGGATGGAGAATCAAG+TGG | 0.622649 | 3_3:+79004467 | Msa0475660:CDS |
| AAGATTCACATGCTTCAAAG+AGG | 0.642884 | 3_3:+79004369 | Msa0475660:CDS |
| AGATTCACATGCTTCAAAGA+GGG | 0.654356 | 3_3:+79004370 | Msa0475660:CDS |
| AATGAAGTTTGAATCTGAGG+CGG | 0.661995 | 3_3:+79004246 | None:intergenic |
| TGACAAAAGACGTCAACCGA+CGG | 0.667263 | 3_3:+79004405 | Msa0475660:intron |
| CAAAAGACGTCAACCGACGG+CGG | 0.706901 | 3_3:+79004408 | Msa0475660:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATGATTACAGTAAAAGAAT+TGG | + | chr3_3:79004286-79004305 | Msa0475660:CDS | 20.0% |
| !!! | GGAAATAAAAGTATAATAGA+TGG | + | chr3_3:79004331-79004350 | Msa0475660:CDS | 20.0% |
| !! | AAATTGAAAAAATCTCAAGA+TGG | + | chr3_3:79004589-79004608 | Msa0475660:CDS | 20.0% |
| ! | TTTGATATTCATCGAGAATA+TGG | + | chr3_3:79004310-79004329 | Msa0475660:CDS | 25.0% |
| ! | TATGTTGTCCAAAAAATATC+CGG | + | chr3_3:79004451-79004470 | Msa0475660:CDS | 25.0% |
| ! | CTAAAAGACGTTATAAATCT+TGG | + | chr3_3:79004527-79004546 | Msa0475660:CDS | 25.0% |
| GCTTGAAAAAGAAGCTAAAA+AGG | + | chr3_3:79004549-79004568 | Msa0475660:CDS | 30.0% | |
| AAGATTCACATGCTTCAAAG+AGG | + | chr3_3:79004369-79004388 | Msa0475660:CDS | 35.0% | |
| AGATTCACATGCTTCAAAGA+GGG | + | chr3_3:79004370-79004389 | Msa0475660:CDS | 35.0% | |
| TTGTCCAAAAAATATCCGGA+TGG | + | chr3_3:79004455-79004474 | Msa0475660:CDS | 35.0% | |
| !!! | TTCTCCATCCGGATATTTTT+TGG | - | chr3_3:79004462-79004481 | None:intergenic | 35.0% |
| TCTTACGTGGACAATTGATA+TGG | - | chr3_3:79004507-79004526 | None:intergenic | 35.0% | |
| !!! | TAACGTCTTTTAGTCTTACG+TGG | - | chr3_3:79004520-79004539 | None:intergenic | 35.0% |
| ATTCCACTTGATTCTCCATC+CGG | - | chr3_3:79004473-79004492 | None:intergenic | 40.0% | |
| TGACAAAAGACGTCAACCGA+CGG | + | chr3_3:79004405-79004424 | Msa0475660:intron | 45.0% | |
| TATCCGGATGGAGAATCAAG+TGG | + | chr3_3:79004467-79004486 | Msa0475660:CDS | 45.0% | |
| GGATGGAGAATCAAGTGGAA+TGG | + | chr3_3:79004472-79004491 | Msa0475660:CDS | 45.0% | |
| ! | GAAGTTTGAATCTGAGGCGG+CGG | + | chr3_3:79004249-79004268 | Msa0475660:CDS | 50.0% |
| CAAAAGACGTCAACCGACGG+CGG | + | chr3_3:79004408-79004427 | Msa0475660:intron | 55.0% | |
| ! | TCTGCTCTAGACTCCGCCGT+CGG | - | chr3_3:79004424-79004443 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 79004247 | 79004630 | 79004247 | ID=Msa0475660;Name=Msa0475660 |
| chr3_3 | mRNA | 79004247 | 79004630 | 79004247 | ID=Msa0475660-mRNA-1;Parent=Msa0475660;Name=Msa0475660-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|0|0|1|0|0|2|0|122 |
| chr3_3 | exon | 79004247 | 79004395 | 79004247 | ID=Msa0475660-mRNA-1:exon:21408;Parent=Msa0475660-mRNA-1 |
| chr3_3 | exon | 79004414 | 79004630 | 79004414 | ID=Msa0475660-mRNA-1:exon:21409;Parent=Msa0475660-mRNA-1 |
| chr3_3 | CDS | 79004247 | 79004395 | 79004247 | ID=Msa0475660-mRNA-1:cds;Parent=Msa0475660-mRNA-1 |
| chr3_3 | CDS | 79004414 | 79004630 | 79004414 | ID=Msa0475660-mRNA-1:cds;Parent=Msa0475660-mRNA-1 |
| Gene Sequence |
| Protein sequence |
