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.gene56481.t1 | RHN62036.1 | 92.7 | 398 | 26 | 3 | 1 | 395 | 101 | 498 | 3.50E-101 | 378.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56481.t1 | Q9M202 | 52.6 | 57 | 27 | 0 | 339 | 395 | 224 | 280 | 1.3e-08 | 62.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56481.t1 | A0A396I8U1 | 92.7 | 398 | 26 | 3 | 1 | 395 | 101 | 498 | 2.5e-101 | 378.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene56481.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene56481.t1 | MTR_4g082980 | 83.166 | 398 | 16 | 5 | 1 | 395 | 101 | 450 | 2.62e-174 | 494 |
| MS.gene56481.t1 | MTR_5g043930 | 43.459 | 451 | 160 | 21 | 1 | 395 | 103 | 514 | 2.09e-62 | 209 |
| MS.gene56481.t1 | MTR_4g109340 | 31.002 | 429 | 227 | 20 | 3 | 395 | 95 | 490 | 6.32e-36 | 138 |
| MS.gene56481.t1 | MTR_0160s0030 | 50.847 | 59 | 28 | 1 | 337 | 395 | 284 | 341 | 2.29e-14 | 74.3 |
| MS.gene56481.t1 | MTR_4g100860 | 48.387 | 62 | 29 | 1 | 337 | 395 | 244 | 305 | 1.55e-11 | 65.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56481.t1 | AT1G26610 | 36.277 | 419 | 187 | 20 | 2 | 395 | 92 | 455 | 1.30e-49 | 174 |
| MS.gene56481.t1 | AT1G26590 | 29.517 | 393 | 169 | 15 | 5 | 391 | 66 | 356 | 3.71e-19 | 88.6 |
| MS.gene56481.t1 | AT1G26590 | 29.517 | 393 | 169 | 15 | 5 | 391 | 66 | 356 | 3.71e-19 | 88.6 |
| MS.gene56481.t1 | AT1G26590 | 29.517 | 393 | 169 | 15 | 5 | 391 | 66 | 356 | 3.71e-19 | 88.6 |
| MS.gene56481.t1 | AT1G26590 | 29.517 | 393 | 169 | 15 | 5 | 391 | 84 | 374 | 4.50e-19 | 88.6 |
| MS.gene56481.t1 | AT1G02030 | 55.000 | 60 | 21 | 2 | 336 | 395 | 206 | 259 | 1.90e-12 | 67.4 |
| MS.gene56481.t1 | AT3G60580 | 52.632 | 57 | 27 | 0 | 339 | 395 | 224 | 280 | 3.91e-12 | 67.0 |
| MS.gene56481.t1 | AT2G45120 | 47.143 | 70 | 32 | 2 | 331 | 395 | 235 | 304 | 7.04e-11 | 63.2 |
Find 48 sgRNAs with CRISPR-Local
Find 60 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTTCTTCTTCTTCTGTTAA+TGG | 0.176069 | 4.4:+30086370 | MS.gene56481:CDS |
| CTTTCTATTCACAGCTTTAC+TGG | 0.265058 | 4.4:-30087064 | None:intergenic |
| CCTGCTCCTGTGGATGAATA+AGG | 0.307720 | 4.4:+30087300 | MS.gene56481:CDS |
| CTGCTACAACAATGAATCTA+AGG | 0.340412 | 4.4:+30086296 | MS.gene56481:CDS |
| GATTCGAGGGATTTCAGATA+TGG | 0.370754 | 4.4:+30086658 | MS.gene56481:CDS |
| TCGAAGATTGTTATCAGAAA+TGG | 0.375407 | 4.4:+30086544 | MS.gene56481:CDS |
| ATCTGTTTCTGAGATGGAAC+AGG | 0.383756 | 4.4:+30086402 | MS.gene56481:CDS |
| CCTTCATTGAAAGCACTTTG+TGG | 0.392261 | 4.4:+30086169 | MS.gene56481:CDS |
| AGGTACGATGGATAAGGATT+TGG | 0.397075 | 4.4:+30086819 | MS.gene56481:CDS |
| AGAAAGAAAGCAAACTTTGA+AGG | 0.397607 | 4.4:+30086865 | MS.gene56481:CDS |
| GATTTATCTGCTTCCACCTT+AGG | 0.403922 | 4.4:-30086736 | None:intergenic |
| TTCAGGTCAGGACAAGCATT+AGG | 0.413798 | 4.4:+30087174 | MS.gene56481:CDS |
| TTCTTCATCTGTTTCTGAGA+TGG | 0.422661 | 4.4:+30086396 | MS.gene56481:CDS |
| ACAACTATGTTTAAGAAATC+AGG | 0.422976 | 4.4:+30086799 | MS.gene56481:CDS |
| AAGAAGGAGCTGAAGATGGT+TGG | 0.430210 | 4.4:+30086613 | MS.gene56481:CDS |
| GGAAATCTAAGAGAAGGATT+AGG | 0.438686 | 4.4:+30086317 | MS.gene56481:CDS |
| GATCGGTGTTTCGAATAATT+CGG | 0.442405 | 4.4:+30086636 | MS.gene56481:CDS |
| GAAGATCAACAAGGCTATGA+TGG | 0.459880 | 4.4:+30086222 | MS.gene56481:CDS |
| AGAAGGAGCTGAAGATGGTT+GGG | 0.464454 | 4.4:+30086614 | MS.gene56481:CDS |
| CCTTATTCATCCACAGGAGC+AGG | 0.473629 | 4.4:-30087300 | None:intergenic |
| GAAATCAGGTACGATGGATA+AGG | 0.482279 | 4.4:+30086813 | MS.gene56481:CDS |
| AATGAAGAAATCTATGAGAA+TGG | 0.504427 | 4.4:+30086907 | MS.gene56481:CDS |
| CCACAAAGTGCTTTCAATGA+AGG | 0.507655 | 4.4:-30086169 | None:intergenic |
| AGCAGATAAATCTGGATTTG+AGG | 0.507748 | 4.4:+30086747 | MS.gene56481:CDS |
| GTTTGTTGCGGAGAAGAAGA+AGG | 0.510689 | 4.4:+30086597 | MS.gene56481:CDS |
| AAGGTGGAAGCAGATAAATC+TGG | 0.519283 | 4.4:+30086739 | MS.gene56481:CDS |
| TCTTCTTCTTCTGTTAATGG+TGG | 0.530303 | 4.4:+30086373 | MS.gene56481:CDS |
| TTTCGAATAATTCGGATTCG+AGG | 0.532430 | 4.4:+30086644 | MS.gene56481:CDS |
| GAAGAAGAAGGAGCTGAAGA+TGG | 0.533199 | 4.4:+30086609 | MS.gene56481:CDS |
| TTCGAATAATTCGGATTCGA+GGG | 0.541551 | 4.4:+30086645 | MS.gene56481:CDS |
| GAAAGCACTTTGTGGTCACA+TGG | 0.555106 | 4.4:+30086177 | MS.gene56481:CDS |
| TCTCAATCTACCTGCTCCTG+TGG | 0.555313 | 4.4:+30087290 | MS.gene56481:CDS |
| TTTCAAGCTATGAATTCAAG+AGG | 0.573385 | 4.4:+30086713 | MS.gene56481:CDS |
| CAACAAGGCTATGATGGAGG+AGG | 0.578283 | 4.4:+30086228 | MS.gene56481:CDS |
| ATCTAAGGAAATCTAAGAGA+AGG | 0.581198 | 4.4:+30086311 | MS.gene56481:CDS |
| CTATGAATTCAAGAGGCCTA+AGG | 0.586326 | 4.4:+30086720 | MS.gene56481:CDS |
| TAATGCTCGTGAGTTTGTTG+CGG | 0.608198 | 4.4:+30086585 | MS.gene56481:CDS |
| TGAATTCAAGAGGCCTAAGG+TGG | 0.609568 | 4.4:+30086723 | MS.gene56481:CDS |
| AGGTCAGGACAAGCATTAGG+AGG | 0.611093 | 4.4:+30087177 | MS.gene56481:CDS |
| AAGAAATTATCAAGCAACAA+GGG | 0.615423 | 4.4:+30087084 | MS.gene56481:CDS |
| GAGCTGAAGATGGTTGGGAT+CGG | 0.620650 | 4.4:+30086619 | MS.gene56481:CDS |
| CCATTAACAGAAGAAGAAGA+AGG | 0.621252 | 4.4:-30086370 | None:intergenic |
| GTTTAAGAAATCAGGTACGA+TGG | 0.632267 | 4.4:+30086807 | MS.gene56481:CDS |
| AACAACAAGAAGAAGTTGCT+AGG | 0.632715 | 4.4:+30086425 | MS.gene56481:CDS |
| AAAGAAATTATCAAGCAACA+AGG | 0.646880 | 4.4:+30087083 | MS.gene56481:CDS |
| GATCAACAAGGCTATGATGG+AGG | 0.660663 | 4.4:+30086225 | MS.gene56481:CDS |
| AGATTGAGATCAATCAAACA+AGG | 0.701265 | 4.4:-30087276 | None:intergenic |
| GAAAGAGAAGAAGATCAACA+AGG | 0.702925 | 4.4:+30086213 | MS.gene56481:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTATGAAATATGAGTTTTT+TGG | + | chr4.4:30086937-30086956 | MS.gene56481:CDS | 20.0% |
| ! | AAAGAAATTATCAAGCAACA+AGG | + | chr4.4:30087083-30087102 | MS.gene56481:CDS | 25.0% |
| ! | AAGAAATTATCAAGCAACAA+GGG | + | chr4.4:30087084-30087103 | MS.gene56481:CDS | 25.0% |
| ! | AATGAAGAAATCTATGAGAA+TGG | + | chr4.4:30086907-30086926 | MS.gene56481:CDS | 25.0% |
| ! | ACAACTATGTTTAAGAAATC+AGG | + | chr4.4:30086799-30086818 | MS.gene56481:CDS | 25.0% |
| !! | ATCAAATTTTGCAAAGAATG+TGG | + | chr4.4:30086136-30086155 | MS.gene56481:CDS | 25.0% |
| !! | CATAAAAGATCACATTTTGT+TGG | + | chr4.4:30087201-30087220 | MS.gene56481:CDS | 25.0% |
| !! | CTGAAAATTTTGTAGCAAAT+TGG | - | chr4.4:30087159-30087178 | None:intergenic | 25.0% |
| !! | TCAAATTTTGCAAAGAATGT+GGG | + | chr4.4:30086137-30086156 | MS.gene56481:CDS | 25.0% |
| !!! | AGAGATTTTTTTGGTCATAA+GGG | + | chr4.4:30086466-30086485 | MS.gene56481:CDS | 25.0% |
| !!! | CAATTTGCTACAAAATTTTC+AGG | + | chr4.4:30087157-30087176 | MS.gene56481:CDS | 25.0% |
| !!! | TAGAGATTTTTTTGGTCATA+AGG | + | chr4.4:30086465-30086484 | MS.gene56481:CDS | 25.0% |
| !!! | TGAGTTTTTTGGTTATGAAA+AGG | + | chr4.4:30086948-30086967 | MS.gene56481:CDS | 25.0% |
| !!! | TTGTTGTCTAGAGATTTTTT+TGG | + | chr4.4:30086457-30086476 | MS.gene56481:CDS | 25.0% |
| AGAAAGAAAGCAAACTTTGA+AGG | + | chr4.4:30086865-30086884 | MS.gene56481:CDS | 30.0% | |
| AGATTGAGATCAATCAAACA+AGG | - | chr4.4:30087279-30087298 | None:intergenic | 30.0% | |
| ATCTAAGGAAATCTAAGAGA+AGG | + | chr4.4:30086311-30086330 | MS.gene56481:CDS | 30.0% | |
| TCGAAGATTGTTATCAGAAA+TGG | + | chr4.4:30086544-30086563 | MS.gene56481:CDS | 30.0% | |
| TTTCAAGCTATGAATTCAAG+AGG | + | chr4.4:30086713-30086732 | MS.gene56481:CDS | 30.0% | |
| ! | AAAAGATCACATTTTGTTGG+AGG | + | chr4.4:30087204-30087223 | MS.gene56481:CDS | 30.0% |
| AACAACAAGAAGAAGTTGCT+AGG | + | chr4.4:30086425-30086444 | MS.gene56481:CDS | 35.0% | |
| AGCAGATAAATCTGGATTTG+AGG | + | chr4.4:30086747-30086766 | MS.gene56481:CDS | 35.0% | |
| CCATTAACAGAAGAAGAAGA+AGG | - | chr4.4:30086373-30086392 | None:intergenic | 35.0% | |
| CCTTCTTCTTCTTCTGTTAA+TGG | + | chr4.4:30086370-30086389 | MS.gene56481:CDS | 35.0% | |
| CTGCTACAACAATGAATCTA+AGG | + | chr4.4:30086296-30086315 | MS.gene56481:CDS | 35.0% | |
| CTTTCTATTCACAGCTTTAC+TGG | - | chr4.4:30087067-30087086 | None:intergenic | 35.0% | |
| GAAAGAGAAGAAGATCAACA+AGG | + | chr4.4:30086213-30086232 | MS.gene56481:CDS | 35.0% | |
| GGAAATCTAAGAGAAGGATT+AGG | + | chr4.4:30086317-30086336 | MS.gene56481:CDS | 35.0% | |
| GTTTAAGAAATCAGGTACGA+TGG | + | chr4.4:30086807-30086826 | MS.gene56481:CDS | 35.0% | |
| TCTTCTTCTTCTGTTAATGG+TGG | + | chr4.4:30086373-30086392 | MS.gene56481:CDS | 35.0% | |
| TTCGAATAATTCGGATTCGA+GGG | + | chr4.4:30086645-30086664 | MS.gene56481:CDS | 35.0% | |
| TTTCGAATAATTCGGATTCG+AGG | + | chr4.4:30086644-30086663 | MS.gene56481:CDS | 35.0% | |
| ! | GATCGGTGTTTCGAATAATT+CGG | + | chr4.4:30086636-30086655 | MS.gene56481:CDS | 35.0% |
| ! | TTTTGCAAAGAATGTGGGAA+AGG | + | chr4.4:30086142-30086161 | MS.gene56481:CDS | 35.0% |
| !! | TTCTTCATCTGTTTCTGAGA+TGG | + | chr4.4:30086396-30086415 | MS.gene56481:CDS | 35.0% |
| !!! | TGCTACAAAATTTTCAGGTC+AGG | + | chr4.4:30087162-30087181 | MS.gene56481:CDS | 35.0% |
| AAGGTGGAAGCAGATAAATC+TGG | + | chr4.4:30086739-30086758 | MS.gene56481:CDS | 40.0% | |
| AGGTACGATGGATAAGGATT+TGG | + | chr4.4:30086819-30086838 | MS.gene56481:CDS | 40.0% | |
| CTATGAATTCAAGAGGCCTA+AGG | + | chr4.4:30086720-30086739 | MS.gene56481:CDS | 40.0% | |
| GAAATCAGGTACGATGGATA+AGG | + | chr4.4:30086813-30086832 | MS.gene56481:CDS | 40.0% | |
| GAAGATCAACAAGGCTATGA+TGG | + | chr4.4:30086222-30086241 | MS.gene56481:CDS | 40.0% | |
| GATTCGAGGGATTTCAGATA+TGG | + | chr4.4:30086658-30086677 | MS.gene56481:CDS | 40.0% | |
| GATTTATCTGCTTCCACCTT+AGG | - | chr4.4:30086739-30086758 | None:intergenic | 40.0% | |
| ! | CCACAAAGTGCTTTCAATGA+AGG | - | chr4.4:30086172-30086191 | None:intergenic | 40.0% |
| !! | ATCTGTTTCTGAGATGGAAC+AGG | + | chr4.4:30086402-30086421 | MS.gene56481:CDS | 40.0% |
| !! | CCTTCATTGAAAGCACTTTG+TGG | + | chr4.4:30086169-30086188 | MS.gene56481:CDS | 40.0% |
| !! | TAATGCTCGTGAGTTTGTTG+CGG | + | chr4.4:30086585-30086604 | MS.gene56481:CDS | 40.0% |
| AAGAAGGAGCTGAAGATGGT+TGG | + | chr4.4:30086613-30086632 | MS.gene56481:CDS | 45.0% | |
| AGAAGGAGCTGAAGATGGTT+GGG | + | chr4.4:30086614-30086633 | MS.gene56481:CDS | 45.0% | |
| GAAGAAGAAGGAGCTGAAGA+TGG | + | chr4.4:30086609-30086628 | MS.gene56481:CDS | 45.0% | |
| GATCAACAAGGCTATGATGG+AGG | + | chr4.4:30086225-30086244 | MS.gene56481:CDS | 45.0% | |
| TGAATTCAAGAGGCCTAAGG+TGG | + | chr4.4:30086723-30086742 | MS.gene56481:CDS | 45.0% | |
| TTCAGGTCAGGACAAGCATT+AGG | + | chr4.4:30087174-30087193 | MS.gene56481:CDS | 45.0% | |
| ! | CTGGTATGAGATTTTGCAGC+AGG | - | chr4.4:30087048-30087067 | None:intergenic | 45.0% |
| ! | GTTTGTTGCGGAGAAGAAGA+AGG | + | chr4.4:30086597-30086616 | MS.gene56481:CDS | 45.0% |
| !! | GAAAGCACTTTGTGGTCACA+TGG | + | chr4.4:30086177-30086196 | MS.gene56481:CDS | 45.0% |
| AGGTCAGGACAAGCATTAGG+AGG | + | chr4.4:30087177-30087196 | MS.gene56481:CDS | 50.0% | |
| GAGCTGAAGATGGTTGGGAT+CGG | + | chr4.4:30086619-30086638 | MS.gene56481:CDS | 50.0% | |
| TCTCAATCTACCTGCTCCTG+TGG | + | chr4.4:30087290-30087309 | MS.gene56481:CDS | 50.0% | |
| ! | CAACAAGGCTATGATGGAGG+AGG | + | chr4.4:30086228-30086247 | MS.gene56481:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 30086133 | 30087320 | 30086133 | ID=MS.gene56481 |
| chr4.4 | mRNA | 30086133 | 30087320 | 30086133 | ID=MS.gene56481.t1;Parent=MS.gene56481 |
| chr4.4 | exon | 30086133 | 30087320 | 30086133 | ID=MS.gene56481.t1.exon1;Parent=MS.gene56481.t1 |
| chr4.4 | CDS | 30086133 | 30087320 | 30086133 | ID=cds.MS.gene56481.t1;Parent=MS.gene56481.t1 |
| Gene Sequence |
| Protein sequence |
