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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0519260 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0519260 | A0A072V9E3 | 77.941 | 68 | 9 | 1 | 1 | 62 | 21 | 88 | 8.72e-29 | 110 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0519260 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0519260 | MtrunA17_Chr3g0082121 | 70.588 | 68 | 14 | 1 | 1 | 62 | 47 | 114 | 2.68e-23 | 93.6 |
| Msa0519260 | MtrunA17_Chr5g0401121 | 61.765 | 68 | 20 | 1 | 1 | 62 | 60 | 127 | 5.99e-19 | 77.4 |
| Msa0519260 | MtrunA17_Chr6g0458391 | 55.769 | 52 | 23 | 0 | 1 | 52 | 229 | 280 | 2.25e-15 | 70.9 |
| Msa0519260 | 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_4:+71279447 | Msa0519260:CDS |
| AATGATTACAGTAAAAGAAT+TGG | 0.319753 | 3_4:+71279423 | Msa0519260:CDS |
| TCTTACGTGGACAATTGATA+TGG | 0.322055 | 3_4:-71279641 | None:intergenic |
| CTAAAAGACGTTATAAATCT+TGG | 0.340563 | 3_4:+71279664 | Msa0519260:CDS |
| GGAAATAAAAGTATAATAGA+TGG | 0.370458 | 3_4:+71279468 | Msa0519260:CDS |
| TGGTTTAGTACAATCGTTAC+CGG | 0.434065 | 3_4:+71279746 | Msa0519260:CDS |
| ATTCCACTTGATTCTCCATC+CGG | 0.489687 | 3_4:-71279607 | None:intergenic |
| GAAGTTTGAATCTGAGGCGG+CGG | 0.566137 | 3_4:+71279386 | Msa0519260:CDS |
| GGGAATGAAGTTTGAATCTG+AGG | 0.567573 | 3_4:+71279380 | None:intergenic |
| GGATGGAGAATCAAGTGGAA+TGG | 0.607473 | 3_4:+71279609 | Msa0519260:CDS |
| TCTGCTCTAGACTCCGCCGT+CGG | 0.612404 | 3_4:-71279558 | None:intergenic |
| TATCCGGATGGAGAATCAAG+TGG | 0.622649 | 3_4:+71279604 | Msa0519260:CDS |
| AAGATTCACATGCTTCAAAG+AGG | 0.642884 | 3_4:+71279506 | Msa0519260:CDS |
| AGATTCACATGCTTCAAAGA+GGG | 0.654356 | 3_4:+71279507 | Msa0519260:CDS |
| AATGAAGTTTGAATCTGAGG+CGG | 0.661995 | 3_4:+71279383 | None:intergenic |
| TGACAAAAGACGTCAACCGA+CGG | 0.667263 | 3_4:+71279542 | Msa0519260:intron |
| CAAAAGACGTCAACCGACGG+CGG | 0.706901 | 3_4:+71279545 | Msa0519260:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATGATTACAGTAAAAGAAT+TGG | + | chr3_4:71279423-71279442 | Msa0519260:CDS | 20.0% |
| !!! | GGAAATAAAAGTATAATAGA+TGG | + | chr3_4:71279468-71279487 | Msa0519260:CDS | 20.0% |
| !! | AAATTGAAAAAATCTCAAGA+TGG | + | chr3_4:71279726-71279745 | Msa0519260:CDS | 20.0% |
| ! | TTTGATATTCATCGAGAATA+TGG | + | chr3_4:71279447-71279466 | Msa0519260:CDS | 25.0% |
| ! | TATGTTGTCCAAAAAATATC+CGG | + | chr3_4:71279588-71279607 | Msa0519260:CDS | 25.0% |
| ! | CTAAAAGACGTTATAAATCT+TGG | + | chr3_4:71279664-71279683 | Msa0519260:CDS | 25.0% |
| GCTTGAAAAAGAAGCTAAAA+AGG | + | chr3_4:71279686-71279705 | Msa0519260:CDS | 30.0% | |
| AAGATTCACATGCTTCAAAG+AGG | + | chr3_4:71279506-71279525 | Msa0519260:CDS | 35.0% | |
| AGATTCACATGCTTCAAAGA+GGG | + | chr3_4:71279507-71279526 | Msa0519260:CDS | 35.0% | |
| TTGTCCAAAAAATATCCGGA+TGG | + | chr3_4:71279592-71279611 | Msa0519260:CDS | 35.0% | |
| !!! | TTCTCCATCCGGATATTTTT+TGG | - | chr3_4:71279599-71279618 | None:intergenic | 35.0% |
| TCTTACGTGGACAATTGATA+TGG | - | chr3_4:71279644-71279663 | None:intergenic | 35.0% | |
| !!! | TAACGTCTTTTAGTCTTACG+TGG | - | chr3_4:71279657-71279676 | None:intergenic | 35.0% |
| ATTCCACTTGATTCTCCATC+CGG | - | chr3_4:71279610-71279629 | None:intergenic | 40.0% | |
| TGACAAAAGACGTCAACCGA+CGG | + | chr3_4:71279542-71279561 | Msa0519260:intron | 45.0% | |
| TATCCGGATGGAGAATCAAG+TGG | + | chr3_4:71279604-71279623 | Msa0519260:CDS | 45.0% | |
| GGATGGAGAATCAAGTGGAA+TGG | + | chr3_4:71279609-71279628 | Msa0519260:CDS | 45.0% | |
| ! | GAAGTTTGAATCTGAGGCGG+CGG | + | chr3_4:71279386-71279405 | Msa0519260:CDS | 50.0% |
| CAAAAGACGTCAACCGACGG+CGG | + | chr3_4:71279545-71279564 | Msa0519260:intron | 55.0% | |
| ! | TCTGCTCTAGACTCCGCCGT+CGG | - | chr3_4:71279561-71279580 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 71279384 | 71279767 | 71279384 | ID=Msa0519260;Name=Msa0519260 |
| chr3_4 | mRNA | 71279384 | 71279767 | 71279384 | ID=Msa0519260-mRNA-1;Parent=Msa0519260;Name=Msa0519260-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|0|0|1|0|0|2|0|122 |
| chr3_4 | exon | 71279384 | 71279532 | 71279384 | ID=Msa0519260-mRNA-1:exon:19564;Parent=Msa0519260-mRNA-1 |
| chr3_4 | exon | 71279551 | 71279767 | 71279551 | ID=Msa0519260-mRNA-1:exon:19565;Parent=Msa0519260-mRNA-1 |
| chr3_4 | CDS | 71279384 | 71279532 | 71279384 | ID=Msa0519260-mRNA-1:cds;Parent=Msa0519260-mRNA-1 |
| chr3_4 | CDS | 71279551 | 71279767 | 71279551 | ID=Msa0519260-mRNA-1:cds;Parent=Msa0519260-mRNA-1 |
| Gene Sequence |
| Protein sequence |
