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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0425600 | AES72596.1 | 95.000 | 60 | 2 | 1 | 1 | 59 | 1 | 60 | 2.34e-30 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0425600 | G7J898 | 95.000 | 60 | 2 | 1 | 1 | 59 | 1 | 60 | 1.12e-30 | 110 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0425600 | Msa0554770 | -0.808234 | 3.424099e-50 | -8.615850e-47 |
| Msa0425600 | Msa0814660 | 0.803913 | 2.778095e-49 | -8.615850e-47 |
| Msa0425600 | Msa0859040 | 0.805469 | 1.315152e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0425600 | MtrunA17_Chr3g0127681 | 95.000 | 60 | 2 | 1 | 1 | 59 | 1 | 60 | 2.15e-34 | 110 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 15 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAACATACCGTATTTGAAAT+TGG | 0.201233 | 3_2:-75977464 | None:intergenic |
| TATCCTCCACCTCCGGGATA+TGG | 0.279606 | 3_2:-75977639 | None:intergenic |
| TAGATGACATGAGTAATAAA+AGG | 0.341437 | 3_2:-75977420 | None:intergenic |
| TACCGTATTTGAAATTGGAT+TGG | 0.406621 | 3_2:-75977459 | None:intergenic |
| ATTACTCATGTCATCTATGA+TGG | 0.420101 | 3_2:+75977426 | Msa0425600:CDS |
| ACCGTATTTGAAATTGGATT+GGG | 0.449252 | 3_2:-75977458 | None:intergenic |
| GCCCAATCCAATTTCAAATA+CGG | 0.471080 | 3_2:+75977457 | Msa0425600:CDS |
| TCATGGATATCCTCCACCTC+CGG | 0.477210 | 3_2:-75977646 | None:intergenic |
| CATGGATATCCTCCACCTCC+GGG | 0.505885 | 3_2:-75977645 | None:intergenic |
| TCCGGGATATGGACTATAAG+TGG | 0.508652 | 3_2:-75977628 | None:intergenic |
| AGTCCATATCCCGGAGGTGG+AGG | 0.512559 | 3_2:+75977636 | Msa0425600:CDS |
| TATAGTCCATATCCCGGAGG+TGG | 0.571680 | 3_2:+75977633 | Msa0425600:CDS |
| CCCACTTATAGTCCATATCC+CGG | 0.609687 | 3_2:+75977627 | Msa0425600:CDS |
| CCGGGATATGGACTATAAGT+GGG | 0.660573 | 3_2:-75977627 | None:intergenic |
| ACTTATAGTCCATATCCCGG+AGG | 0.767218 | 3_2:+75977630 | Msa0425600:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GATTCATTTAATTTTATATA+TGG | + | chr3_2:75977576-75977595 | Msa0425600:intron | 10.0% |
| !!! | GATCACAATTTTAATATAAA+GGG | - | chr3_2:75977490-75977509 | None:intergenic | 15.0% |
| !!! | AGATCACAATTTTAATATAA+AGG | - | chr3_2:75977491-75977510 | None:intergenic | 15.0% |
| !! | AAAAAAAATAGATCATGATA+TGG | - | chr3_2:75977536-75977555 | None:intergenic | 15.0% |
| !! | AAAAAATGACTTCAATTTAG+AGG | - | chr3_2:75977386-75977405 | None:intergenic | 20.0% |
| !!! | TTTAATTTTATATATGGTGC+AGG | + | chr3_2:75977582-75977601 | Msa0425600:intron | 20.0% |
| !!! | TTAATTTTATATATGGTGCA+GGG | + | chr3_2:75977583-75977602 | Msa0425600:intron | 20.0% |
| ! | TAGATGACATGAGTAATAAA+AGG | - | chr3_2:75977423-75977442 | None:intergenic | 25.0% |
| ! | AATAGATCATGATATGGATA+TGG | - | chr3_2:75977530-75977549 | None:intergenic | 25.0% |
| ATTACTCATGTCATCTATGA+TGG | + | chr3_2:75977426-75977445 | Msa0425600:CDS | 30.0% | |
| ! | ACCGTATTTGAAATTGGATT+GGG | - | chr3_2:75977461-75977480 | None:intergenic | 30.0% |
| ! | TACCGTATTTGAAATTGGAT+TGG | - | chr3_2:75977462-75977481 | None:intergenic | 30.0% |
| ! | CAACATACCGTATTTGAAAT+TGG | - | chr3_2:75977467-75977486 | None:intergenic | 30.0% |
| GCCCAATCCAATTTCAAATA+CGG | + | chr3_2:75977457-75977476 | Msa0425600:CDS | 35.0% | |
| ! | CCGGGATATGGACTATAAGT+GGG | - | chr3_2:75977630-75977649 | None:intergenic | 45.0% |
| CCCACTTATAGTCCATATCC+CGG | + | chr3_2:75977627-75977646 | Msa0425600:CDS | 45.0% | |
| ! | TCCGGGATATGGACTATAAG+TGG | - | chr3_2:75977631-75977650 | None:intergenic | 45.0% |
| ACTTATAGTCCATATCCCGG+AGG | + | chr3_2:75977630-75977649 | Msa0425600:CDS | 45.0% | |
| TATAGTCCATATCCCGGAGG+TGG | + | chr3_2:75977633-75977652 | Msa0425600:CDS | 50.0% | |
| TCATGGATATCCTCCACCTC+CGG | - | chr3_2:75977649-75977668 | None:intergenic | 50.0% | |
| TATCCTCCACCTCCGGGATA+TGG | - | chr3_2:75977642-75977661 | None:intergenic | 55.0% | |
| CATGGATATCCTCCACCTCC+GGG | - | chr3_2:75977648-75977667 | None:intergenic | 55.0% | |
| AGTCCATATCCCGGAGGTGG+AGG | + | chr3_2:75977636-75977655 | Msa0425600:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 75977364 | 75977668 | 75977364 | ID=Msa0425600;Name=Msa0425600 |
| chr3_2 | mRNA | 75977364 | 75977668 | 75977364 | ID=Msa0425600-mRNA-1;Parent=Msa0425600;Name=Msa0425600-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0|0|0|1|1|1|2|0|59 |
| chr3_2 | exon | 75977364 | 75977478 | 75977364 | ID=Msa0425600-mRNA-1:exon:19524;Parent=Msa0425600-mRNA-1 |
| chr3_2 | exon | 75977604 | 75977668 | 75977604 | ID=Msa0425600-mRNA-1:exon:19525;Parent=Msa0425600-mRNA-1 |
| chr3_2 | CDS | 75977364 | 75977478 | 75977364 | ID=Msa0425600-mRNA-1:cds;Parent=Msa0425600-mRNA-1 |
| chr3_2 | CDS | 75977604 | 75977668 | 75977604 | ID=Msa0425600-mRNA-1:cds;Parent=Msa0425600-mRNA-1 |
| Gene Sequence |
| Protein sequence |
