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.gene08374.t1 | RHN42301.1 | 88.3 | 247 | 23 | 1 | 1 | 247 | 38 | 278 | 2.20E-114 | 421.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08374.t1 | Q6NLW5 | 46.2 | 80 | 37 | 2 | 168 | 247 | 227 | 300 | 6.7e-11 | 69.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08374.t1 | A0A396GQ56 | 88.3 | 247 | 23 | 1 | 1 | 247 | 38 | 278 | 1.6e-114 | 421.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene053536 | MS.gene08374 | 0.804624 | 1.98E-49 | -1.69E-46 |
| MS.gene053538 | MS.gene08374 | 0.80587 | 1.08E-49 | -1.69E-46 |
| MS.gene05894 | MS.gene08374 | 0.804154 | 2.48E-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.gene08374.t1 | MTR_3g064750 | 40.667 | 150 | 72 | 5 | 100 | 247 | 140 | 274 | 5.20e-28 | 108 |
| MS.gene08374.t1 | MTR_7g056400 | 41.414 | 99 | 47 | 2 | 152 | 247 | 216 | 306 | 5.65e-16 | 76.3 |
| MS.gene08374.t1 | MTR_8g013095 | 31.429 | 140 | 74 | 3 | 111 | 247 | 187 | 307 | 1.44e-13 | 69.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08374.t1 | AT2G01990 | 48.729 | 236 | 81 | 9 | 13 | 247 | 17 | 213 | 3.08e-57 | 181 |
| MS.gene08374.t1 | AT2G01990 | 48.305 | 236 | 82 | 9 | 13 | 247 | 48 | 244 | 1.70e-56 | 181 |
| MS.gene08374.t1 | AT1G14630 | 46.154 | 234 | 70 | 5 | 14 | 247 | 49 | 226 | 2.63e-52 | 169 |
| MS.gene08374.t1 | AT5G48720 | 37.736 | 106 | 57 | 3 | 145 | 247 | 201 | 300 | 2.05e-15 | 74.3 |
| MS.gene08374.t1 | AT5G48720 | 37.736 | 106 | 57 | 3 | 145 | 247 | 201 | 300 | 2.05e-15 | 74.3 |
| MS.gene08374.t1 | AT5G48720 | 37.736 | 106 | 57 | 3 | 145 | 247 | 167 | 266 | 2.24e-15 | 73.9 |
| MS.gene08374.t1 | AT5G48720 | 37.736 | 106 | 57 | 3 | 145 | 247 | 167 | 266 | 2.24e-15 | 73.9 |
Find 56 sgRNAs with CRISPR-Local
Find 80 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATGAAGATGAGGAGGAATT+TGG | 0.210157 | 4.1:+17327927 | None:intergenic |
| GCACAAGGTCCAGGCCTTTC+AGG | 0.243748 | 4.1:-17327404 | MS.gene08374:CDS |
| TGGGGTGTCTCTGCTGGTTT+TGG | 0.261526 | 4.1:+17327878 | None:intergenic |
| TCACCAACTGGATGCCTTAC+TGG | 0.271694 | 4.1:+17327452 | None:intergenic |
| CCACTGGTTGGTGCCATATA+GGG | 0.272649 | 4.1:+17328389 | None:intergenic |
| TCTGGAATTTCAACCCTATA+TGG | 0.295231 | 4.1:-17328402 | MS.gene08374:CDS |
| TCCACTGGTTGGTGCCATAT+AGG | 0.356387 | 4.1:+17328388 | None:intergenic |
| CTTGAGTGTGGATTCTAGTA+AGG | 0.359570 | 4.1:+17327366 | None:intergenic |
| GGATGCCTTACTGGCCTTGT+TGG | 0.361970 | 4.1:+17327461 | None:intergenic |
| GGTGATGAGAAAGAAGAAAA+AGG | 0.363465 | 4.1:-17327594 | MS.gene08374:CDS |
| CAAGAGTCTGATTTCTCAAC+TGG | 0.388114 | 4.1:-17328637 | MS.gene08374:CDS |
| ACCAAGTGGGGTGTCTCTGC+TGG | 0.412693 | 4.1:+17327872 | None:intergenic |
| CCACCACTGCTTTGCCTGAA+AGG | 0.422228 | 4.1:+17327390 | None:intergenic |
| ACATCACCTTCTTCTCCTCC+TGG | 0.426500 | 4.1:+17327521 | None:intergenic |
| GTACTGTGAATGTTAGCCTT+TGG | 0.428209 | 4.1:+17327313 | None:intergenic |
| TGGTTATCTTGAAGATGCTT+TGG | 0.432715 | 4.1:-17328617 | MS.gene08374:CDS |
| GTGTCTTCTAGAAGAATGTT+TGG | 0.443352 | 4.1:+17327987 | None:intergenic |
| TGCCTTACTGGCCTTGTTGG+AGG | 0.444848 | 4.1:+17327464 | None:intergenic |
| CCTGGCTTCACTAATGCAAA+TGG | 0.448137 | 4.1:+17327539 | None:intergenic |
| TACCTTATCAAAATCATCAA+TGG | 0.460583 | 4.1:+17328525 | None:intergenic |
| GAAGATGCTTTGGTTGAGTT+CGG | 0.464739 | 4.1:-17328607 | MS.gene08374:CDS |
| TGCCTCCAACAAGGCCAGTA+AGG | 0.471163 | 4.1:-17327466 | MS.gene08374:CDS |
| ACTGCTTTGCCTGAAAGGCC+TGG | 0.473365 | 4.1:+17327395 | None:intergenic |
| TGCGTATCTGCACAAGGTCC+AGG | 0.484327 | 4.1:-17327413 | MS.gene08374:CDS |
| GATCAGATAGAAAGGATTTG+TGG | 0.485973 | 4.1:-17328349 | MS.gene08374:CDS |
| GTGAAGCCAGGAGGAGAAGA+AGG | 0.488620 | 4.1:-17327527 | MS.gene08374:CDS |
| CGACATGCAAAGTCACCAAC+TGG | 0.501594 | 4.1:+17327440 | None:intergenic |
| TGCCTCTTCTTCCTTGAGTG+TGG | 0.502866 | 4.1:+17327354 | None:intergenic |
| CCATTTGCATTAGTGAAGCC+AGG | 0.517544 | 4.1:-17327539 | MS.gene08374:CDS |
| ACTGCATGGATCAGATAGAA+AGG | 0.538926 | 4.1:-17328357 | MS.gene08374:CDS |
| TATATAAAAGTATACCAAGT+GGG | 0.540976 | 4.1:+17327859 | None:intergenic |
| TAATTCTTTGTATGAAGATG+AGG | 0.552442 | 4.1:+17327917 | None:intergenic |
| CCTTTCAGGCAAAGCAGTGG+TGG | 0.557492 | 4.1:-17327390 | MS.gene08374:CDS |
| TTGAGTGTGGATTCTAGTAA+GGG | 0.559111 | 4.1:+17327367 | None:intergenic |
| AGTGGAGAATTTCTACTGCA+TGG | 0.572678 | 4.1:-17328371 | MS.gene08374:CDS |
| TTCTTTGTATGAAGATGAGG+AGG | 0.574245 | 4.1:+17327920 | None:intergenic |
| CCCTATATGGCACCAACCAG+TGG | 0.576336 | 4.1:-17328389 | MS.gene08374:CDS |
| ATCACTATTATCAGAACCAA+AGG | 0.578340 | 4.1:-17327329 | MS.gene08374:CDS |
| ACCAGCAGAGACACCCCACT+TGG | 0.586964 | 4.1:-17327873 | MS.gene08374:intron |
| ATCCACACTCAAGGAAGAAG+AGG | 0.597837 | 4.1:-17327356 | MS.gene08374:CDS |
| CATTGAATGACATAAATGAA+AGG | 0.598530 | 4.1:-17327496 | MS.gene08374:CDS |
| ATGCAGTAGAAATTCTCCAC+TGG | 0.600169 | 4.1:+17328373 | None:intergenic |
| GGACCTTGTGCAGATACGCA+TGG | 0.608397 | 4.1:+17327416 | None:intergenic |
| CAGTTGGTGACTTTGCATGT+CGG | 0.613753 | 4.1:-17327439 | MS.gene08374:CDS |
| TTTGGTTCTGATAATAGTGA+TGG | 0.613771 | 4.1:+17327331 | None:intergenic |
| CGGCCATGCGTATCTGCACA+AGG | 0.617785 | 4.1:-17327419 | MS.gene08374:CDS |
| TACTACTACTACTAGTGATG+AGG | 0.626129 | 4.1:-17327615 | MS.gene08374:CDS |
| AGTAGAAATTCTCCACTGGT+TGG | 0.629919 | 4.1:+17328377 | None:intergenic |
| GGATCTTAATGCCTCCAACA+AGG | 0.630736 | 4.1:-17327475 | MS.gene08374:CDS |
| ATGAACATATAAGCACATTG+AGG | 0.639326 | 4.1:-17328028 | MS.gene08374:CDS |
| CTTACTAGAATCCACACTCA+AGG | 0.649499 | 4.1:-17327365 | MS.gene08374:CDS |
| ATATAAAAGTATACCAAGTG+GGG | 0.654319 | 4.1:+17327860 | None:intergenic |
| AAGGACAACAACAACAAGAG+TGG | 0.654506 | 4.1:-17327567 | MS.gene08374:CDS |
| AGGCCTTTCAGGCAAAGCAG+TGG | 0.658996 | 4.1:-17327393 | MS.gene08374:CDS |
| AGGCCAGTAAGGCATCCAGT+TGG | 0.681142 | 4.1:-17327455 | MS.gene08374:CDS |
| TTTGCATTAGTGAAGCCAGG+AGG | 0.731178 | 4.1:-17327536 | MS.gene08374:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAACTATAAATATATCATA+TGG | - | chr4.1:17328320-17328339 | MS.gene08374:intron | 10.0% |
| !! | TATATTAATGTAGTAAAATA+CGG | - | chr4.1:17328212-17328231 | MS.gene08374:intron | 10.0% |
| !! | AAATCAAAAGAAAAGAATAA+AGG | - | chr4.1:17327827-17327846 | MS.gene08374:intron | 15.0% |
| !! | AATTTCAAACTTAAAATGAA+AGG | + | chr4.1:17327520-17327539 | None:intergenic | 15.0% |
| !! | TTTATATACTCTATTACATA+TGG | - | chr4.1:17328148-17328167 | MS.gene08374:intron | 15.0% |
| !! | AATTGATTGAGAATTGAAAA+AGG | - | chr4.1:17327795-17327814 | MS.gene08374:intron | 20.0% |
| !! | TATGTAACTATATATAGTTC+TGG | - | chr4.1:17327572-17327591 | MS.gene08374:CDS | 20.0% |
| !!! | TATATAAAAGTATACCAAGT+GGG | + | chr4.1:17328136-17328155 | None:intergenic | 20.0% |
| !!! | TCTTTTCTTTTGATTTCTTT+GGG | + | chr4.1:17327823-17327842 | None:intergenic | 20.0% |
| !!! | TTCTTTTCTTTTGATTTCTT+TGG | + | chr4.1:17327824-17327843 | None:intergenic | 20.0% |
| ! | CATTGAATGACATAAATGAA+AGG | - | chr4.1:17328496-17328515 | MS.gene08374:intron | 25.0% |
| ! | TAATTCTTTGTATGAAGATG+AGG | + | chr4.1:17328078-17328097 | None:intergenic | 25.0% |
| ! | TACCTTATCAAAATCATCAA+TGG | + | chr4.1:17327470-17327489 | None:intergenic | 25.0% |
| !! | ATATAAAAGTATACCAAGTG+GGG | + | chr4.1:17328135-17328154 | None:intergenic | 25.0% |
| !! | GTATATAAAAGTATACCAAG+TGG | + | chr4.1:17328137-17328156 | None:intergenic | 25.0% |
| !!! | TTCCATTGATGATTTTGATA+AGG | - | chr4.1:17327465-17327484 | MS.gene08374:CDS | 25.0% |
| !!! | TTTGAAATTCTTGTTGTTCT+TGG | - | chr4.1:17327531-17327550 | MS.gene08374:CDS | 25.0% |
| ATCACTATTATCAGAACCAA+AGG | - | chr4.1:17328663-17328682 | MS.gene08374:CDS | 30.0% | |
| ATGAACATATAAGCACATTG+AGG | - | chr4.1:17327964-17327983 | MS.gene08374:CDS | 30.0% | |
| ! | ATATGACGTGATGATCATTT+TGG | - | chr4.1:17327716-17327735 | MS.gene08374:intron | 30.0% |
| !! | TTTGGTTCTGATAATAGTGA+TGG | + | chr4.1:17328664-17328683 | None:intergenic | 30.0% |
| !!! | CTGGTTTTGGATATTGTTAA+TGG | + | chr4.1:17328104-17328123 | None:intergenic | 30.0% |
| !!! | GATGATCATTTTGGTTCAAA+AGG | - | chr4.1:17327725-17327744 | MS.gene08374:intron | 30.0% |
| GAAAGAAGAAAAAGGTGGTA+AGG | - | chr4.1:17328406-17328425 | MS.gene08374:CDS | 35.0% | |
| GATCAGATAGAAAGGATTTG+TGG | - | chr4.1:17327643-17327662 | MS.gene08374:intron | 35.0% | |
| GATGAGAAAGAAGAAAAAGG+TGG | - | chr4.1:17328401-17328420 | MS.gene08374:CDS | 35.0% | |
| GGTGATGAGAAAGAAGAAAA+AGG | - | chr4.1:17328398-17328417 | MS.gene08374:CDS | 35.0% | |
| TAAAATACGGACCACAATTG+CGG | - | chr4.1:17328225-17328244 | MS.gene08374:intron | 35.0% | |
| TACTACTACTACTAGTGATG+AGG | - | chr4.1:17328377-17328396 | MS.gene08374:CDS | 35.0% | |
| TATGAAGATGAGGAGGAATT+TGG | + | chr4.1:17328068-17328087 | None:intergenic | 35.0% | |
| TGGTTATCTTGAAGATGCTT+TGG | - | chr4.1:17327375-17327394 | MS.gene08374:CDS | 35.0% | |
| TTCTTTGTATGAAGATGAGG+AGG | + | chr4.1:17328075-17328094 | None:intergenic | 35.0% | |
| TTGAGTGTGGATTCTAGTAA+GGG | + | chr4.1:17328628-17328647 | None:intergenic | 35.0% | |
| ! | GAAAGGATTTGTGGATTTTC+AGG | - | chr4.1:17327652-17327671 | MS.gene08374:intron | 35.0% |
| ! | GTGTCTTCTAGAAGAATGTT+TGG | + | chr4.1:17328008-17328027 | None:intergenic | 35.0% |
| ! | TCTGGAATTTCAACCCTATA+TGG | - | chr4.1:17327590-17327609 | MS.gene08374:CDS | 35.0% |
| AAGGACAACAACAACAAGAG+TGG | - | chr4.1:17328425-17328444 | MS.gene08374:intron | 40.0% | |
| ACTGCATGGATCAGATAGAA+AGG | - | chr4.1:17327635-17327654 | MS.gene08374:intron | 40.0% | |
| AGTAGAAATTCTCCACTGGT+TGG | + | chr4.1:17327618-17327637 | None:intergenic | 40.0% | |
| AGTGGAGAATTTCTACTGCA+TGG | - | chr4.1:17327621-17327640 | MS.gene08374:CDS | 40.0% | |
| ATGCAGTAGAAATTCTCCAC+TGG | + | chr4.1:17327622-17327641 | None:intergenic | 40.0% | |
| CAAGAGTCTGATTTCTCAAC+TGG | - | chr4.1:17327355-17327374 | MS.gene08374:CDS | 40.0% | |
| CTTACTAGAATCCACACTCA+AGG | - | chr4.1:17328627-17328646 | MS.gene08374:CDS | 40.0% | |
| CTTGAGTGTGGATTCTAGTA+AGG | + | chr4.1:17328629-17328648 | None:intergenic | 40.0% | |
| GAAGATGCTTTGGTTGAGTT+CGG | - | chr4.1:17327385-17327404 | MS.gene08374:CDS | 40.0% | |
| ! | ATGGTTTGCAACTGCAATTG+CGG | + | chr4.1:17328295-17328314 | None:intergenic | 40.0% |
| ATCCACACTCAAGGAAGAAG+AGG | - | chr4.1:17328636-17328655 | MS.gene08374:CDS | 45.0% | |
| CCATTTGCATTAGTGAAGCC+AGG | - | chr4.1:17328453-17328472 | MS.gene08374:intron | 45.0% | |
| CCTGGCTTCACTAATGCAAA+TGG | + | chr4.1:17328456-17328475 | None:intergenic | 45.0% | |
| GGATCTTAATGCCTCCAACA+AGG | - | chr4.1:17328517-17328536 | MS.gene08374:intron | 45.0% | |
| TTGCAGTCACAATTACGCTG+CGG | - | chr4.1:17328184-17328203 | MS.gene08374:intron | 45.0% | |
| TTTGCATTAGTGAAGCCAGG+AGG | - | chr4.1:17328456-17328475 | MS.gene08374:intron | 45.0% | |
| !! | CAGTTGGTGACTTTGCATGT+CGG | - | chr4.1:17328553-17328572 | MS.gene08374:CDS | 45.0% |
| !! | TATTATAAATTATTAAAAAC+AGG | - | chr4.1:17328348-17328367 | MS.gene08374:CDS | 5.0% |
| !!! | ATATTTATAGTTTTAATTTA+TGG | + | chr4.1:17328314-17328333 | None:intergenic | 5.0% |
| !!! | TATTATTTTAATTTACTAAT+TGG | - | chr4.1:17327922-17327941 | MS.gene08374:CDS | 5.0% |
| ACATCACCTTCTTCTCCTCC+TGG | + | chr4.1:17328474-17328493 | None:intergenic | 50.0% | |
| CGACATGCAAAGTCACCAAC+TGG | + | chr4.1:17328555-17328574 | None:intergenic | 50.0% | |
| GCACATTGCAACCGCAATTG+TGG | + | chr4.1:17328239-17328258 | None:intergenic | 50.0% | |
| TCACCAACTGGATGCCTTAC+TGG | + | chr4.1:17328543-17328562 | None:intergenic | 50.0% | |
| TGCCTCTTCTTCCTTGAGTG+TGG | + | chr4.1:17328641-17328660 | None:intergenic | 50.0% | |
| !! | CCACTGGTTGGTGCCATATA+GGG | + | chr4.1:17327606-17327625 | None:intergenic | 50.0% |
| !! | TCCACTGGTTGGTGCCATAT+AGG | + | chr4.1:17327607-17327626 | None:intergenic | 50.0% |
| ACTGCTTTGCCTGAAAGGCC+TGG | + | chr4.1:17328600-17328619 | None:intergenic | 55.0% | |
| AGGCCTTTCAGGCAAAGCAG+TGG | - | chr4.1:17328599-17328618 | MS.gene08374:CDS | 55.0% | |
| CCACCACTGCTTTGCCTGAA+AGG | + | chr4.1:17328605-17328624 | None:intergenic | 55.0% | |
| CCCTATATGGCACCAACCAG+TGG | - | chr4.1:17327603-17327622 | MS.gene08374:CDS | 55.0% | |
| CCTTTCAGGCAAAGCAGTGG+TGG | - | chr4.1:17328602-17328621 | MS.gene08374:CDS | 55.0% | |
| GGACCTTGTGCAGATACGCA+TGG | + | chr4.1:17328579-17328598 | None:intergenic | 55.0% | |
| GTGAAGCCAGGAGGAGAAGA+AGG | - | chr4.1:17328465-17328484 | MS.gene08374:intron | 55.0% | |
| TGCCTCCAACAAGGCCAGTA+AGG | - | chr4.1:17328526-17328545 | MS.gene08374:intron | 55.0% | |
| TGCGTATCTGCACAAGGTCC+AGG | - | chr4.1:17328579-17328598 | MS.gene08374:CDS | 55.0% | |
| ! | AGGCCAGTAAGGCATCCAGT+TGG | - | chr4.1:17328537-17328556 | MS.gene08374:CDS | 55.0% |
| !! | GGATGCCTTACTGGCCTTGT+TGG | + | chr4.1:17328534-17328553 | None:intergenic | 55.0% |
| !! | TGCCTTACTGGCCTTGTTGG+AGG | + | chr4.1:17328531-17328550 | None:intergenic | 55.0% |
| !!! | TGGGGTGTCTCTGCTGGTTT+TGG | + | chr4.1:17328117-17328136 | None:intergenic | 55.0% |
| ACCAGCAGAGACACCCCACT+TGG | - | chr4.1:17328119-17328138 | MS.gene08374:intron | 60.0% | |
| CGGCCATGCGTATCTGCACA+AGG | - | chr4.1:17328573-17328592 | MS.gene08374:CDS | 60.0% | |
| GCACAAGGTCCAGGCCTTTC+AGG | - | chr4.1:17328588-17328607 | MS.gene08374:CDS | 60.0% | |
| ! | ACCAAGTGGGGTGTCTCTGC+TGG | + | chr4.1:17328123-17328142 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 17327325 | 17328689 | 17327325 | ID=MS.gene08374 |
| chr4.1 | mRNA | 17327325 | 17328689 | 17327325 | ID=MS.gene08374.t1;Parent=MS.gene08374 |
| chr4.1 | exon | 17328528 | 17328689 | 17328528 | ID=MS.gene08374.t1.exon1;Parent=MS.gene08374.t1 |
| chr4.1 | CDS | 17328528 | 17328689 | 17328528 | ID=cds.MS.gene08374.t1;Parent=MS.gene08374.t1 |
| chr4.1 | exon | 17328341 | 17328425 | 17328341 | ID=MS.gene08374.t1.exon2;Parent=MS.gene08374.t1 |
| chr4.1 | CDS | 17328341 | 17328425 | 17328341 | ID=cds.MS.gene08374.t1;Parent=MS.gene08374.t1 |
| chr4.1 | exon | 17327874 | 17328050 | 17327874 | ID=MS.gene08374.t1.exon3;Parent=MS.gene08374.t1 |
| chr4.1 | CDS | 17327874 | 17328050 | 17327874 | ID=cds.MS.gene08374.t1;Parent=MS.gene08374.t1 |
| chr4.1 | exon | 17327325 | 17327644 | 17327325 | ID=MS.gene08374.t1.exon4;Parent=MS.gene08374.t1 |
| chr4.1 | CDS | 17327325 | 17327644 | 17327325 | ID=cds.MS.gene08374.t1;Parent=MS.gene08374.t1 |
| Gene Sequence |
| Protein sequence |
