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.gene050102.t1 | XP_013455969.1 | 50 | 66 | 33 | 0 | 2 | 67 | 3 | 68 | 1.50E-10 | 75.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene050102.t1 | Q40875 | 46.6 | 58 | 29 | 1 | 1 | 58 | 7 | 62 | 1.8e-07 | 56.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene050102.t1 | A0A072UVX3 | 50.0 | 66 | 33 | 0 | 2 | 67 | 3 | 68 | 1.1e-10 | 75.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050092 | MS.gene050102 | 0.94048 | 2.17E-100 | -1.69E-46 |
| MS.gene050093 | MS.gene050102 | 0.933711 | 1.24E-95 | -1.69E-46 |
| MS.gene050101 | MS.gene050102 | 0.955373 | 3.52E-113 | -1.69E-46 |
| MS.gene050102 | MS.gene08896 | 0.820261 | 7.53E-53 | -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.gene050102.t1 | MTR_4g057825 | 57.143 | 49 | 21 | 0 | 19 | 67 | 20 | 68 | 3.96e-16 | 69.3 |
| MS.gene050102.t1 | MTR_0002s1200 | 42.373 | 59 | 33 | 1 | 12 | 69 | 95 | 153 | 4.24e-12 | 59.3 |
| MS.gene050102.t1 | MTR_0129s0080 | 37.681 | 69 | 41 | 2 | 2 | 68 | 7 | 75 | 2.07e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 14 sgRNAs with CRISPR-Local
Find 17 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTCTCATTTGTGCAATGATA+TGG | 0.225299 | 4.2:-45413237 | None:intergenic |
| GTTATTGTTCTCTTTGTTGC+TGG | 0.313075 | 4.2:+45413059 | MS.gene050102:CDS |
| TTTGTGCAATGATATGGGTT+AGG | 0.440239 | 4.2:-45413231 | None:intergenic |
| TCTCATTTGTGCAATGATAT+GGG | 0.503124 | 4.2:-45413236 | None:intergenic |
| GTAGTAGTCAAAGTTTATGT+TGG | 0.505505 | 4.2:-45413100 | None:intergenic |
| ATTTCAGCATCCACGGATTG+TGG | 0.518420 | 4.2:+45413190 | MS.gene050102:CDS |
| TGTTCTGCGGCCACAATCCG+TGG | 0.527412 | 4.2:-45413200 | None:intergenic |
| CCTCAAAATTTCAGCATCCA+CGG | 0.533572 | 4.2:+45413183 | MS.gene050102:CDS |
| GATTGTGGCCGCAGAACAAG+AGG | 0.588738 | 4.2:+45413205 | MS.gene050102:CDS |
| TTAGGCTTCCTCTTGTTCTG+CGG | 0.625435 | 4.2:-45413213 | None:intergenic |
| TCATTGCACAAATGAGACAC+TGG | 0.631016 | 4.2:+45413242 | MS.gene050102:CDS |
| TGAGACACTGGAGCCGCATG+TGG | 0.638823 | 4.2:+45413254 | MS.gene050102:CDS |
| TCGAGATAGCATACCACATG+CGG | 0.641657 | 4.2:-45413267 | None:intergenic |
| ACTACATGCTAGCAGAAACA+TGG | 0.642833 | 4.2:+45413118 | MS.gene050102:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGAAATTTTGAGGTATATTA+GGG | - | chr4.2:45413176-45413195 | None:intergenic | 20.0% |
| !! | GATTTGTTTAGACAAAAAGT+TGG | - | chr4.2:45413147-45413166 | None:intergenic | 25.0% |
| !!! | CTGAAATTTTGAGGTATATT+AGG | - | chr4.2:45413177-45413196 | None:intergenic | 25.0% |
| GTAGTAGTCAAAGTTTATGT+TGG | - | chr4.2:45413103-45413122 | None:intergenic | 30.0% | |
| TCTCATTTGTGCAATGATAT+GGG | - | chr4.2:45413239-45413258 | None:intergenic | 30.0% | |
| TTGTTTAGACAAAAAGTTGG+TGG | - | chr4.2:45413144-45413163 | None:intergenic | 30.0% | |
| GTCTCATTTGTGCAATGATA+TGG | - | chr4.2:45413240-45413259 | None:intergenic | 35.0% | |
| GTTATTGTTCTCTTTGTTGC+TGG | + | chr4.2:45413059-45413078 | MS.gene050102:CDS | 35.0% | |
| TTTGTGCAATGATATGGGTT+AGG | - | chr4.2:45413234-45413253 | None:intergenic | 35.0% | |
| ACTACATGCTAGCAGAAACA+TGG | + | chr4.2:45413118-45413137 | MS.gene050102:CDS | 40.0% | |
| CCTCAAAATTTCAGCATCCA+CGG | + | chr4.2:45413183-45413202 | MS.gene050102:CDS | 40.0% | |
| TCATTGCACAAATGAGACAC+TGG | + | chr4.2:45413242-45413261 | MS.gene050102:CDS | 40.0% | |
| TTAGGCTTCCTCTTGTTCTG+CGG | - | chr4.2:45413216-45413235 | None:intergenic | 45.0% | |
| ! | ATTTCAGCATCCACGGATTG+TGG | + | chr4.2:45413190-45413209 | MS.gene050102:CDS | 45.0% |
| ! | CCGTGGATGCTGAAATTTTG+AGG | - | chr4.2:45413186-45413205 | None:intergenic | 45.0% |
| GATTGTGGCCGCAGAACAAG+AGG | + | chr4.2:45413205-45413224 | MS.gene050102:CDS | 55.0% | |
| TGTTCTGCGGCCACAATCCG+TGG | - | chr4.2:45413203-45413222 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.2 | gene | 45413054 | 45413275 | 45413054 | ID=MS.gene050102 |
| chr4.2 | mRNA | 45413054 | 45413275 | 45413054 | ID=MS.gene050102.t1;Parent=MS.gene050102 |
| chr4.2 | exon | 45413054 | 45413275 | 45413054 | ID=MS.gene050102.t1.exon1;Parent=MS.gene050102.t1 |
| chr4.2 | CDS | 45413054 | 45413275 | 45413054 | ID=cds.MS.gene050102.t1;Parent=MS.gene050102.t1 |
| Gene Sequence |
| Protein sequence |
