Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene83088.t1 | RHN78016.1 | 80.7 | 171 | 33 | 0 | 1 | 171 | 1553 | 1723 | 2.20E-60 | 241.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene83088.t1 | A0A072VGK3 | 80.7 | 171 | 33 | 0 | 1 | 171 | 1698 | 1868 | 1.6e-60 | 241.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051492 | MS.gene83088 | 0.805242 | 1.47E-49 | -1.69E-46 |
| MS.gene051744 | MS.gene83088 | 0.826351 | 2.84E-54 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene83088.t1 | MTR_1g031830 | 93.413 | 167 | 11 | 0 | 5 | 171 | 1702 | 1868 | 7.21e-97 | 306 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 12 sgRNAs with CRISPR-Local
Find 16 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTAATGTGCTCATGGCTTT+TGG | 0.266752 | 1.2:-16655073 | None:intergenic |
| TGACATTCAGCTCCATATTA+AGG | 0.278274 | 1.2:-16655129 | None:intergenic |
| TGCCAATGTCTCAGAAAGTT+TGG | 0.298886 | 1.2:-16655191 | None:intergenic |
| TAATTATGAGAACCTTAATA+TGG | 0.368096 | 1.2:+16655117 | MS.gene83088:CDS |
| AAAAGAGTATACTATTGATA+TGG | 0.422211 | 1.2:+16655213 | MS.gene83088:CDS |
| GACCAAACTTTCTGAGACAT+TGG | 0.482826 | 1.2:+16655189 | MS.gene83088:CDS |
| ACTTGATTCTAATGTGCTCA+TGG | 0.523152 | 1.2:-16655080 | None:intergenic |
| TCCTCAAAGACTTCGCAAAA+CGG | 0.526963 | 1.2:+16655026 | MS.gene83088:CDS |
| GATTGTAAATTCTTTAGCAA+GGG | 0.534940 | 1.2:+16654976 | MS.gene83088:CDS |
| AGGTGAAAAGCAATCAACTT+TGG | 0.540218 | 1.2:-16654837 | None:intergenic |
| GGATTGTAAATTCTTTAGCA+AGG | 0.562853 | 1.2:+16654975 | MS.gene83088:CDS |
| CTGAATGTCAAGTTGAGTGA+AGG | 0.615473 | 1.2:+16655142 | MS.gene83088:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACAAGAAAAAATTGAAAACT+TGG | + | chr1.2:16655165-16655184 | MS.gene83088:CDS | 20.0% |
| !! | TAATTATGAGAACCTTAATA+TGG | + | chr1.2:16655117-16655136 | MS.gene83088:CDS | 20.0% |
| !!! | AAAAGAGTATACTATTGATA+TGG | + | chr1.2:16655213-16655232 | MS.gene83088:CDS | 20.0% |
| ! | GATTGTAAATTCTTTAGCAA+GGG | + | chr1.2:16654976-16654995 | MS.gene83088:CDS | 25.0% |
| GGATTGTAAATTCTTTAGCA+AGG | + | chr1.2:16654975-16654994 | MS.gene83088:CDS | 30.0% | |
| ! | ATGTTTTCAACAATGTAGAG+AGG | + | chr1.2:16654954-16654973 | MS.gene83088:CDS | 30.0% |
| ACTTGATTCTAATGTGCTCA+TGG | - | chr1.2:16655083-16655102 | None:intergenic | 35.0% | |
| AGGTGAAAAGCAATCAACTT+TGG | - | chr1.2:16654840-16654859 | None:intergenic | 35.0% | |
| TGACATTCAGCTCCATATTA+AGG | - | chr1.2:16655132-16655151 | None:intergenic | 35.0% | |
| ! | GAACTTGAGTTTTCAGTATC+AGG | - | chr1.2:16654860-16654879 | None:intergenic | 35.0% |
| TCCTCAAAGACTTCGCAAAA+CGG | + | chr1.2:16655026-16655045 | MS.gene83088:CDS | 40.0% | |
| TGCCAATGTCTCAGAAAGTT+TGG | - | chr1.2:16655194-16655213 | None:intergenic | 40.0% | |
| ! | TCTAATGTGCTCATGGCTTT+TGG | - | chr1.2:16655076-16655095 | None:intergenic | 40.0% |
| !! | CTGAATGTCAAGTTGAGTGA+AGG | + | chr1.2:16655142-16655161 | MS.gene83088:CDS | 40.0% |
| !! | GACCAAACTTTCTGAGACAT+TGG | + | chr1.2:16655189-16655208 | MS.gene83088:CDS | 40.0% |
| ! | ACCGTTTTGCGAAGTCTTTG+AGG | - | chr1.2:16655030-16655049 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.2 | gene | 16654797 | 16655312 | 16654797 | ID=MS.gene83088 |
| chr1.2 | mRNA | 16654797 | 16655312 | 16654797 | ID=MS.gene83088.t1;Parent=MS.gene83088 |
| chr1.2 | exon | 16654797 | 16655312 | 16654797 | ID=MS.gene83088.t1.exon1;Parent=MS.gene83088.t1 |
| chr1.2 | CDS | 16654797 | 16655312 | 16654797 | ID=cds.MS.gene83088.t1;Parent=MS.gene83088.t1 |
| Gene Sequence |
| Protein sequence |
