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.gene93435.t1 | XP_013442744.1 | 97.2 | 106 | 3 | 0 | 1 | 106 | 96 | 201 | 1.10E-49 | 205.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene93435.t1 | C6TG62 | 78.0 | 100 | 22 | 0 | 1 | 100 | 95 | 194 | 1.5e-39 | 163.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene93435.t1 | A0A072TGS8 | 97.2 | 106 | 3 | 0 | 1 | 106 | 96 | 201 | 7.7e-50 | 205.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050082 | MS.gene93435 | 0.828919 | 6.88E-55 | -1.69E-46 |
| MS.gene053920 | MS.gene93435 | 0.918813 | 9.80E-87 | -1.69E-46 |
| MS.gene054706 | MS.gene93435 | 0.801982 | 6.96E-49 | -1.69E-46 |
| MS.gene056590 | MS.gene93435 | 0.811573 | 6.54E-51 | -1.69E-46 |
| MS.gene056591 | MS.gene93435 | 0.809481 | 1.85E-50 | -1.69E-46 |
| MS.gene056856 | MS.gene93435 | 0.803377 | 3.59E-49 | -1.69E-46 |
| MS.gene057717 | MS.gene93435 | 0.840731 | 7.29E-58 | -1.69E-46 |
| MS.gene058067 | MS.gene93435 | 0.815729 | 7.96E-52 | -1.69E-46 |
| MS.gene058068 | MS.gene93435 | 0.804145 | 2.49E-49 | -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.gene93435.t1 | MTR_0097s0070 | 97.170 | 106 | 3 | 0 | 1 | 106 | 96 | 201 | 1.28e-72 | 214 |
| MS.gene93435.t1 | MTR_8g089300 | 75.758 | 99 | 24 | 0 | 1 | 99 | 95 | 193 | 1.69e-43 | 140 |
| MS.gene93435.t1 | MTR_7g108130 | 40.260 | 77 | 46 | 0 | 18 | 94 | 109 | 185 | 6.95e-14 | 64.3 |
| MS.gene93435.t1 | MTR_4g118810 | 45.614 | 57 | 31 | 0 | 20 | 76 | 121 | 177 | 3.97e-12 | 60.1 |
| MS.gene93435.t1 | MTR_0004s0210 | 37.662 | 77 | 48 | 0 | 21 | 97 | 81 | 157 | 5.08e-12 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene93435.t1 | AT5G44550 | 55.556 | 99 | 44 | 0 | 1 | 99 | 87 | 185 | 3.23e-32 | 112 |
| MS.gene93435.t1 | AT4G20390 | 51.579 | 95 | 46 | 0 | 1 | 95 | 87 | 181 | 8.46e-21 | 82.8 |
| MS.gene93435.t1 | AT1G14160 | 41.176 | 68 | 40 | 0 | 23 | 90 | 135 | 202 | 1.17e-12 | 61.6 |
Find 28 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCCCTTATTGCTTCTTTCAT+TGG | 0.228754 | 6.4:-30677280 | MS.gene93435:CDS |
| AAGTCCTTTGTAATCATATT+GGG | 0.274380 | 6.4:+30677580 | None:intergenic |
| GAAGTCCTTTGTAATCATAT+TGG | 0.328703 | 6.4:+30677579 | None:intergenic |
| AGCCAATGAAAGAAGCAATA+AGG | 0.340360 | 6.4:+30677278 | None:intergenic |
| TTTGAAAGCTATTGCAATAG+AGG | 0.418883 | 6.4:-30677310 | MS.gene93435:CDS |
| ATGTCAGCATTGGGAAGAAA+TGG | 0.423404 | 6.4:-30677370 | MS.gene93435:CDS |
| GCCAATGAAAGAAGCAATAA+GGG | 0.431019 | 6.4:+30677279 | None:intergenic |
| ATGATTGCATTGGATATGTT+AGG | 0.445999 | 6.4:-30677605 | MS.gene93435:CDS |
| GGAGCATGGTTAATGCGATT+AGG | 0.484616 | 6.4:+30677205 | None:intergenic |
| AGCAACATTCATGTCAGCAT+TGG | 0.488005 | 6.4:-30677380 | MS.gene93435:CDS |
| ACTATGGCTCTGGCATCAGC+TGG | 0.494373 | 6.4:-30677412 | MS.gene93435:CDS |
| GCGATTAGGCTTGAGAAGCT+TGG | 0.494528 | 6.4:+30677219 | None:intergenic |
| GCAACATTCATGTCAGCATT+GGG | 0.495269 | 6.4:-30677379 | MS.gene93435:CDS |
| GGTGAAGTTAACTATGGCTC+TGG | 0.500555 | 6.4:-30677422 | MS.gene93435:intron |
| ATGTTAATCATATCAAGGAC+TGG | 0.510976 | 6.4:+30677183 | None:intergenic |
| TGGTAATTCACATGCAAGAT+GGG | 0.512674 | 6.4:-30677350 | MS.gene93435:CDS |
| ATGGTAATTCACATGCAAGA+TGG | 0.522902 | 6.4:-30677351 | MS.gene93435:CDS |
| GCTCTGGCATCAGCTGGAGA+TGG | 0.540036 | 6.4:-30677406 | MS.gene93435:CDS |
| TAACTTGGTGATGATTGCAT+TGG | 0.550469 | 6.4:-30677615 | None:intergenic |
| CATATCAAGGACTGGGAGCA+TGG | 0.559515 | 6.4:+30677191 | None:intergenic |
| TGTTAATCATATCAAGGACT+GGG | 0.560345 | 6.4:+30677184 | None:intergenic |
| AGGCTTGAGAAGCTTGGCAA+TGG | 0.561801 | 6.4:+30677225 | None:intergenic |
| CTAAAATTGCAATAAATGCA+AGG | 0.578209 | 6.4:+30677555 | None:intergenic |
| AGCTATTGCAATAGAGGTGG+TGG | 0.598102 | 6.4:-30677304 | MS.gene93435:CDS |
| GAAAGCTATTGCAATAGAGG+TGG | 0.619990 | 6.4:-30677307 | MS.gene93435:CDS |
| TCACAGTGATAATCAAGAGA+AGG | 0.626568 | 6.4:+30677251 | None:intergenic |
| AGTCCTTTGTAATCATATTG+GGG | 0.628572 | 6.4:+30677581 | None:intergenic |
| GGACCCCAATATGATTACAA+AGG | 0.686673 | 6.4:-30677584 | MS.gene93435:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTTTTTTAATTTTTTTCTT+AGG | - | chr6.4:30677309-30677328 | MS.gene93435:CDS | 10.0% |
| !!! | ATTTATTGCAATTTTAGACA+TGG | - | chr6.4:30677251-30677270 | MS.gene93435:CDS | 20.0% |
| ! | AAGTCCTTTGTAATCATATT+GGG | + | chr6.4:30677223-30677242 | None:intergenic | 25.0% |
| ! | CTAAAATTGCAATAAATGCA+AGG | + | chr6.4:30677248-30677267 | None:intergenic | 25.0% |
| AGTCCTTTGTAATCATATTG+GGG | + | chr6.4:30677222-30677241 | None:intergenic | 30.0% | |
| ATGATTGCATTGGATATGTT+AGG | - | chr6.4:30677195-30677214 | MS.gene93435:CDS | 30.0% | |
| GAAGTCCTTTGTAATCATAT+TGG | + | chr6.4:30677224-30677243 | None:intergenic | 30.0% | |
| TTTGAAAGCTATTGCAATAG+AGG | - | chr6.4:30677490-30677509 | MS.gene93435:intron | 30.0% | |
| !!! | TTTTTGGGTGAAGTTAACTA+TGG | - | chr6.4:30677372-30677391 | MS.gene93435:CDS | 30.0% |
| AGCCAATGAAAGAAGCAATA+AGG | + | chr6.4:30677525-30677544 | None:intergenic | 35.0% | |
| ATGGTAATTCACATGCAAGA+TGG | - | chr6.4:30677449-30677468 | MS.gene93435:intron | 35.0% | |
| GCCAATGAAAGAAGCAATAA+GGG | + | chr6.4:30677524-30677543 | None:intergenic | 35.0% | |
| TCACAGTGATAATCAAGAGA+AGG | + | chr6.4:30677552-30677571 | None:intergenic | 35.0% | |
| TGGTAATTCACATGCAAGAT+GGG | - | chr6.4:30677450-30677469 | MS.gene93435:intron | 35.0% | |
| AGCAACATTCATGTCAGCAT+TGG | - | chr6.4:30677420-30677439 | MS.gene93435:intron | 40.0% | |
| GAAAGCTATTGCAATAGAGG+TGG | - | chr6.4:30677493-30677512 | MS.gene93435:intron | 40.0% | |
| GCAACATTCATGTCAGCATT+GGG | - | chr6.4:30677421-30677440 | MS.gene93435:intron | 40.0% | |
| GCCCTTATTGCTTCTTTCAT+TGG | - | chr6.4:30677520-30677539 | MS.gene93435:intron | 40.0% | |
| GGACCCCAATATGATTACAA+AGG | - | chr6.4:30677216-30677235 | MS.gene93435:CDS | 40.0% | |
| ! | ATGTCAGCATTGGGAAGAAA+TGG | - | chr6.4:30677430-30677449 | MS.gene93435:intron | 40.0% |
| AGCTATTGCAATAGAGGTGG+TGG | - | chr6.4:30677496-30677515 | MS.gene93435:intron | 45.0% | |
| GGAGCATGGTTAATGCGATT+AGG | + | chr6.4:30677598-30677617 | None:intergenic | 45.0% | |
| GGTGAAGTTAACTATGGCTC+TGG | - | chr6.4:30677378-30677397 | MS.gene93435:CDS | 45.0% | |
| !!! | TTGATAAATAATATTTTTTT+GGG | - | chr6.4:30677357-30677376 | MS.gene93435:CDS | 5.0% |
| !!! | TTTGATAAATAATATTTTTT+TGG | - | chr6.4:30677356-30677375 | MS.gene93435:CDS | 5.0% |
| AGGCTTGAGAAGCTTGGCAA+TGG | + | chr6.4:30677578-30677597 | None:intergenic | 50.0% | |
| GCGATTAGGCTTGAGAAGCT+TGG | + | chr6.4:30677584-30677603 | None:intergenic | 50.0% | |
| !! | ACTATGGCTCTGGCATCAGC+TGG | - | chr6.4:30677388-30677407 | MS.gene93435:CDS | 55.0% |
| GCTCTGGCATCAGCTGGAGA+TGG | - | chr6.4:30677394-30677413 | MS.gene93435:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.4 | gene | 30677195 | 30677627 | 30677195 | ID=MS.gene93435 |
| chr6.4 | mRNA | 30677195 | 30677627 | 30677195 | ID=MS.gene93435.t1;Parent=MS.gene93435 |
| chr6.4 | exon | 30677550 | 30677627 | 30677550 | ID=MS.gene93435.t1.exon1;Parent=MS.gene93435.t1 |
| chr6.4 | CDS | 30677550 | 30677627 | 30677550 | ID=cds.MS.gene93435.t1;Parent=MS.gene93435.t1 |
| chr6.4 | exon | 30677195 | 30677437 | 30677195 | ID=MS.gene93435.t1.exon2;Parent=MS.gene93435.t1 |
| chr6.4 | CDS | 30677195 | 30677437 | 30677195 | ID=cds.MS.gene93435.t1;Parent=MS.gene93435.t1 |
| Gene Sequence |
| Protein sequence |
