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.gene94008.t1 | XP_027333039.1 | 100 | 42 | 0 | 0 | 32 | 73 | 78 | 119 | 2.00E-13 | 85.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene94008.t1 | Q9C5D3 | 74.5 | 51 | 10 | 1 | 26 | 73 | 92 | 142 | 3.9e-13 | 75.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene94008.t1 | A0A1S2YFJ5 | 100.0 | 42 | 0 | 0 | 32 | 73 | 84 | 125 | 1.5e-13 | 85.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene053166 | MS.gene94008 | 0.806605 | 7.59E-50 | -1.69E-46 |
| MS.gene05415 | MS.gene94008 | 0.802805 | 4.71E-49 | -1.69E-46 |
| MS.gene056173 | MS.gene94008 | 0.800097 | 1.69E-48 | -1.69E-46 |
| MS.gene058515 | MS.gene94008 | 0.831534 | 1.58E-55 | -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.gene94008.t1 | MTR_8g096700 | 83.607 | 61 | 10 | 0 | 25 | 85 | 72 | 132 | 1.45e-27 | 102 |
| MS.gene94008.t1 | MTR_3g099030 | 78.182 | 55 | 11 | 1 | 32 | 86 | 62 | 115 | 4.06e-20 | 82.0 |
| MS.gene94008.t1 | MTR_4g006650 | 83.721 | 43 | 7 | 0 | 32 | 74 | 195 | 237 | 9.31e-19 | 79.0 |
| MS.gene94008.t1 | MTR_3g099040 | 86.047 | 43 | 6 | 0 | 32 | 74 | 62 | 104 | 1.73e-18 | 78.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene94008.t1 | AT5G50740 | 74.074 | 54 | 11 | 1 | 26 | 76 | 46 | 99 | 2.60e-21 | 82.8 |
| MS.gene94008.t1 | AT5G50740 | 74.074 | 54 | 11 | 1 | 26 | 76 | 53 | 106 | 3.41e-21 | 82.8 |
| MS.gene94008.t1 | AT5G50740 | 74.074 | 54 | 11 | 1 | 26 | 76 | 46 | 99 | 3.68e-20 | 82.4 |
| MS.gene94008.t1 | AT5G50740 | 74.074 | 54 | 11 | 1 | 26 | 76 | 46 | 99 | 3.68e-20 | 82.4 |
| MS.gene94008.t1 | AT5G50740 | 74.074 | 54 | 11 | 1 | 26 | 76 | 53 | 106 | 4.29e-20 | 82.4 |
| MS.gene94008.t1 | AT5G63530 | 69.444 | 72 | 18 | 2 | 26 | 94 | 77 | 147 | 4.01e-18 | 77.8 |
| MS.gene94008.t1 | AT5G63530 | 69.444 | 72 | 18 | 2 | 26 | 94 | 92 | 162 | 4.47e-18 | 77.8 |
Find 19 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTTGTTCTGAAGGTGGTTT+TGG | 0.150297 | 3.1:+25711030 | None:intergenic |
| TCTCACAAGGTTGTTGTTAA+AGG | 0.201668 | 3.1:-25711132 | MS.gene94008:CDS |
| CACACACACCTCAGAAGAAT+AGG | 0.379393 | 3.1:+25711279 | None:intergenic |
| GGATGATCTGCAATTCCGTT+TGG | 0.393696 | 3.1:+25711301 | None:intergenic |
| GATGATCTGCAATTCCGTTT+GGG | 0.412498 | 3.1:+25711302 | None:intergenic |
| ACTCTTTCAAGAACCTTCAA+TGG | 0.419505 | 3.1:+25711096 | None:intergenic |
| CGGCGACCTAGGAATCGAAT+TGG | 0.436425 | 3.1:+25711327 | None:intergenic |
| TCTGCAATTCCGTTTGGGAT+CGG | 0.488973 | 3.1:+25711307 | None:intergenic |
| CGCGTTCCAATTCGATTCCT+AGG | 0.490506 | 3.1:-25711333 | MS.gene94008:CDS |
| ACACACACCTCAGAAGAATA+GGG | 0.495940 | 3.1:+25711280 | None:intergenic |
| CCTAGGTCGCCGATCCCAAA+CGG | 0.496575 | 3.1:-25711316 | MS.gene94008:CDS |
| CCGTTTGGGATCGGCGACCT+AGG | 0.500548 | 3.1:+25711316 | None:intergenic |
| GGAAGAAAAGAAAGCTGAAG+AGG | 0.538975 | 3.1:-25710971 | MS.gene94008:CDS |
| GATTTATAATTATGAAGATG+TGG | 0.554215 | 3.1:-25711169 | MS.gene94008:CDS |
| AGATCATCCCTATTCTTCTG+AGG | 0.579765 | 3.1:-25711287 | MS.gene94008:CDS |
| GAAAGAGAAACCTAAGCCAG+AGG | 0.586865 | 3.1:-25710992 | MS.gene94008:CDS |
| AGGAATCGAATTGGAACGCG+TGG | 0.612733 | 3.1:+25711336 | None:intergenic |
| TACTGATTGCAAATCTCACA+AGG | 0.615533 | 3.1:-25711145 | MS.gene94008:CDS |
| AGGTTCTTGAAAGAGTTCAG+AGG | 0.645167 | 3.1:-25711089 | MS.gene94008:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GATTTATAATTATGAAGATG+TGG | - | chr3.1:25711136-25711155 | MS.gene94008:CDS | 20.0% |
| !! | GAGATTTCAATTTTGAATTG+CGG | - | chr3.1:25711090-25711109 | MS.gene94008:CDS | 25.0% |
| !!! | ATTTTTTTCTCTTGTTCTGA+AGG | + | chr3.1:25711287-25711306 | None:intergenic | 25.0% |
| TGTTGTTAAAGGAGAAAAAG+CGG | - | chr3.1:25711184-25711203 | MS.gene94008:intron | 30.0% | |
| ACTCTTTCAAGAACCTTCAA+TGG | + | chr3.1:25711212-25711231 | None:intergenic | 35.0% | |
| ! | TACTGATTGCAAATCTCACA+AGG | - | chr3.1:25711160-25711179 | MS.gene94008:CDS | 35.0% |
| ! | TCTCACAAGGTTGTTGTTAA+AGG | - | chr3.1:25711173-25711192 | MS.gene94008:intron | 35.0% |
| !!! | TTTTTCTCTTGTTCTGAAGG+TGG | + | chr3.1:25711284-25711303 | None:intergenic | 35.0% |
| ACACACACCTCAGAAGAATA+GGG | + | chr3.1:25711028-25711047 | None:intergenic | 40.0% | |
| AGAAAAAGCGGATCCATTGA+AGG | - | chr3.1:25711196-25711215 | MS.gene94008:intron | 40.0% | |
| AGATCATCCCTATTCTTCTG+AGG | - | chr3.1:25711018-25711037 | MS.gene94008:CDS | 40.0% | |
| AGGTTCTTGAAAGAGTTCAG+AGG | - | chr3.1:25711216-25711235 | MS.gene94008:intron | 40.0% | |
| GATGATCTGCAATTCCGTTT+GGG | + | chr3.1:25711006-25711025 | None:intergenic | 40.0% | |
| GGAAGAAAAGAAAGCTGAAG+AGG | - | chr3.1:25711334-25711353 | MS.gene94008:CDS | 40.0% | |
| ! | TCAGCTTTCTTTTCTTCCTC+TGG | + | chr3.1:25711332-25711351 | None:intergenic | 40.0% |
| !! | TTCTTTTCTTCCTCTGGCTT+AGG | + | chr3.1:25711326-25711345 | None:intergenic | 40.0% |
| !!! | CTTGTTCTGAAGGTGGTTTT+GGG | + | chr3.1:25711277-25711296 | None:intergenic | 40.0% |
| !!! | TCTTGTTCTGAAGGTGGTTT+TGG | + | chr3.1:25711278-25711297 | None:intergenic | 40.0% |
| CACACACACCTCAGAAGAAT+AGG | + | chr3.1:25711029-25711048 | None:intergenic | 45.0% | |
| GAAAGAGAAACCTAAGCCAG+AGG | - | chr3.1:25711313-25711332 | MS.gene94008:CDS | 45.0% | |
| GGATGATCTGCAATTCCGTT+TGG | + | chr3.1:25711007-25711026 | None:intergenic | 45.0% | |
| ! | TCTGCAATTCCGTTTGGGAT+CGG | + | chr3.1:25711001-25711020 | None:intergenic | 45.0% |
| !!! | TCTGAAGGTGGTTTTGGGAT+CGG | + | chr3.1:25711272-25711291 | None:intergenic | 45.0% |
| AGGAATCGAATTGGAACGCG+TGG | + | chr3.1:25710972-25710991 | None:intergenic | 50.0% | |
| CGCGTTCCAATTCGATTCCT+AGG | - | chr3.1:25710972-25710991 | MS.gene94008:CDS | 50.0% | |
| CGGCGACCTAGGAATCGAAT+TGG | + | chr3.1:25710981-25711000 | None:intergenic | 55.0% | |
| CCTAGGTCGCCGATCCCAAA+CGG | - | chr3.1:25710989-25711008 | MS.gene94008:CDS | 60.0% | |
| ! | CCGTTTGGGATCGGCGACCT+AGG | + | chr3.1:25710992-25711011 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 25710963 | 25711364 | 25710963 | ID=MS.gene94008 |
| chr3.1 | mRNA | 25710963 | 25711364 | 25710963 | ID=MS.gene94008.t1;Parent=MS.gene94008 |
| chr3.1 | exon | 25711284 | 25711364 | 25711284 | ID=MS.gene94008.t1.exon1;Parent=MS.gene94008.t1 |
| chr3.1 | CDS | 25711284 | 25711364 | 25711284 | ID=cds.MS.gene94008.t1;Parent=MS.gene94008.t1 |
| chr3.1 | exon | 25710963 | 25711190 | 25710963 | ID=MS.gene94008.t1.exon2;Parent=MS.gene94008.t1 |
| chr3.1 | CDS | 25710963 | 25711190 | 25710963 | ID=cds.MS.gene94008.t1;Parent=MS.gene94008.t1 |
| Gene Sequence |
| Protein sequence |
