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.gene27375.t1 | RHN51483.1 | 91.5 | 142 | 12 | 0 | 1 | 142 | 113 | 254 | 6.40E-70 | 273.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene27375.t1 | A0A396HFX6 | 91.5 | 142 | 12 | 0 | 1 | 142 | 113 | 254 | 4.6e-70 | 273.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050303 | MS.gene27375 | 0.808839 | 2.54E-50 | -1.69E-46 |
| MS.gene052309 | MS.gene27375 | -0.812261 | 4.63E-51 | -1.69E-46 |
| MS.gene052376 | MS.gene27375 | 0.81607 | 6.68E-52 | -1.69E-46 |
| MS.gene058399 | MS.gene27375 | 0.823001 | 1.75E-53 | -1.69E-46 |
| MS.gene059249 | MS.gene27375 | 0.801826 | 7.50E-49 | -1.69E-46 |
| MS.gene061040 | MS.gene27375 | -0.801873 | 7.33E-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.gene27375.t1 | MTR_2g092960 | 43.662 | 142 | 75 | 3 | 1 | 142 | 628 | 764 | 9.68e-30 | 114 |
| MS.gene27375.t1 | MTR_3g011560 | 43.972 | 141 | 73 | 2 | 3 | 142 | 111 | 246 | 1.06e-27 | 108 |
| MS.gene27375.t1 | MTR_2g037270 | 43.972 | 141 | 73 | 2 | 3 | 142 | 111 | 246 | 1.18e-27 | 108 |
| MS.gene27375.t1 | MTR_8g017000 | 43.972 | 141 | 73 | 2 | 3 | 142 | 111 | 246 | 1.18e-27 | 108 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 35 sgRNAs with CRISPR-Local
Find 58 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCGAAATACCGATGAATTTA+AGG | 0.118729 | 6.4:-51007485 | MS.gene27375:intron |
| CGGAGGAGGGCGTTCGGCTT+TGG | 0.250749 | 6.4:+51007561 | None:intergenic |
| GGCACGGTGGAACGGGTTTA+AGG | 0.252668 | 6.4:-51007614 | MS.gene27375:CDS |
| GGAGGAGGGCGTTCGGCTTT+GGG | 0.306870 | 6.4:+51007562 | None:intergenic |
| CATATATGTTCTTTAACAAA+AGG | 0.392256 | 6.4:+51007526 | None:intergenic |
| AGAAAAGTGCTAGAAGAATC+AGG | 0.423312 | 6.4:-51007270 | MS.gene27375:CDS |
| CTCCGTCACGTCATGATACA+TGG | 0.443913 | 6.4:-51007206 | MS.gene27375:CDS |
| AAAGATGGATGGTGTGGATG+GGG | 0.447908 | 6.4:-51007636 | None:intergenic |
| AAAAGATGGATGGTGTGGAT+GGG | 0.456372 | 6.4:-51007637 | None:intergenic |
| GAAAAGATGGATGGTGTGGA+TGG | 0.466396 | 6.4:-51007638 | None:intergenic |
| AACATACGGAGGAGGGCGTT+CGG | 0.467718 | 6.4:+51007555 | None:intergenic |
| AGAGAGCAAGACAAAAGAAA+GGG | 0.510259 | 6.4:-51007182 | MS.gene27375:CDS |
| GTTAAAGAACATATATGGAA+GGG | 0.516488 | 6.4:-51007520 | MS.gene27375:CDS |
| TTAAAGAACATATATGGAAG+GGG | 0.534125 | 6.4:-51007519 | MS.gene27375:CDS |
| AAGAGAGCAAGACAAAAGAA+AGG | 0.545038 | 6.4:-51007183 | MS.gene27375:CDS |
| TGTTAAAGAACATATATGGA+AGG | 0.546418 | 6.4:-51007521 | MS.gene27375:CDS |
| GCTTCAAGAGAAAATGATGA+AGG | 0.554709 | 6.4:-51007298 | MS.gene27375:CDS |
| CATCGGTATTTCGAGACTCA+AGG | 0.559357 | 6.4:+51007494 | None:intergenic |
| GGATAGCTAACATACGGAGG+AGG | 0.566911 | 6.4:+51007547 | None:intergenic |
| CTCATCTCAGTCGTAAGCAT+CGG | 0.575955 | 6.4:+51006473 | None:intergenic |
| ACAAAAGGATAGCTAACATA+CGG | 0.576563 | 6.4:+51007541 | None:intergenic |
| CAAACAAACCTTAAATTCAT+CGG | 0.578098 | 6.4:+51007477 | None:intergenic |
| GATAGCTAACATACGGAGGA+GGG | 0.595022 | 6.4:+51007548 | None:intergenic |
| GAGAGCAAGACAAAAGAAAG+GGG | 0.601676 | 6.4:-51007181 | MS.gene27375:CDS |
| TATAGACATACATTATCTCG+TGG | 0.606212 | 6.4:-51007333 | MS.gene27375:CDS |
| TGAAGAAAAGATGGATGGTG+TGG | 0.618248 | 6.4:-51007642 | None:intergenic |
| AAGATGGATGGTGTGGATGG+GGG | 0.621316 | 6.4:-51007635 | None:intergenic |
| TCAAAAGGGTAGGGATTGTG+TGG | 0.628971 | 6.4:-51007367 | MS.gene27375:CDS |
| TTCCATGTATCATGACGTGA+CGG | 0.629045 | 6.4:+51007204 | None:intergenic |
| AGAGCAAGACAAAAGAAAGG+GGG | 0.655364 | 6.4:-51007180 | MS.gene27375:CDS |
| CATGTATCATGACGTGACGG+AGG | 0.686506 | 6.4:+51007207 | None:intergenic |
| AGACATACATTATCTCGTGG+AGG | 0.688726 | 6.4:-51007330 | MS.gene27375:CDS |
| GTTTAAGGCACAACTCACAT+CGG | 0.693484 | 6.4:-51007599 | MS.gene27375:CDS |
| GCTGAAAATTGATTATGATG+TGG | 0.703535 | 6.4:-51006512 | MS.gene27375:CDS |
| AAAGGATAGCTAACATACGG+AGG | 0.710772 | 6.4:+51007544 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAATGATTTGTATTTATAAT+AGG | - | chr6.4:51006705-51006724 | MS.gene27375:intron | 10.0% |
| !!! | TTTAGATATTTGAAGTAATT+AGG | - | chr6.4:51007230-51007249 | MS.gene27375:CDS | 15.0% |
| !! | CATATATGTTCTTTAACAAA+AGG | + | chr6.4:51006579-51006598 | None:intergenic | 20.0% |
| !! | CTGAATTCTGTTTAATTATT+TGG | - | chr6.4:51007424-51007443 | MS.gene27375:intron | 20.0% |
| !! | TCACAAATTTCTATGTAATT+AGG | - | chr6.4:51007282-51007301 | MS.gene27375:CDS | 20.0% |
| !!! | ACAGATTTGACTTAATTATA+AGG | - | chr6.4:51007176-51007195 | MS.gene27375:CDS | 20.0% |
| !!! | CTTTTGTTAAAGAACATATA+TGG | - | chr6.4:51006577-51006596 | MS.gene27375:intron | 20.0% |
| ! | AACTTTATAAGAAGTGATTG+AGG | + | chr6.4:51007502-51007521 | None:intergenic | 25.0% |
| ! | AATTTGTGTAATGAGTTGTT+AGG | + | chr6.4:51007202-51007221 | None:intergenic | 25.0% |
| ! | ATAATAGGCAAAAAGTCAAA+AGG | - | chr6.4:51006720-51006739 | MS.gene27375:intron | 25.0% |
| ! | CAAACAAACCTTAAATTCAT+CGG | + | chr6.4:51006628-51006647 | None:intergenic | 25.0% |
| ! | GTTAAAGAACATATATGGAA+GGG | - | chr6.4:51006582-51006601 | MS.gene27375:intron | 25.0% |
| ! | TAATAGGCAAAAAGTCAAAA+GGG | - | chr6.4:51006721-51006740 | MS.gene27375:intron | 25.0% |
| ! | TGTTAAAGAACATATATGGA+AGG | - | chr6.4:51006581-51006600 | MS.gene27375:intron | 25.0% |
| ! | TTAAAGAACATATATGGAAG+GGG | - | chr6.4:51006583-51006602 | MS.gene27375:intron | 25.0% |
| ACAAAAGGATAGCTAACATA+CGG | + | chr6.4:51006564-51006583 | None:intergenic | 30.0% | |
| AGATATTCTATGGCACAAAA+CGG | + | chr6.4:51007133-51007152 | None:intergenic | 30.0% | |
| GCTGAAAATTGATTATGATG+TGG | - | chr6.4:51007590-51007609 | MS.gene27375:CDS | 30.0% | |
| TATAGACATACATTATCTCG+TGG | - | chr6.4:51006769-51006788 | MS.gene27375:intron | 30.0% | |
| TCGAAATACCGATGAATTTA+AGG | - | chr6.4:51006617-51006636 | MS.gene27375:intron | 30.0% | |
| TCTTATAAAGTTGTTGTGCA+TGG | - | chr6.4:51007510-51007529 | MS.gene27375:CDS | 30.0% | |
| !! | CTTTTAAGAAGCTAATACCA+AGG | + | chr6.4:51007398-51007417 | None:intergenic | 30.0% |
| AAGAGAGCAAGACAAAAGAA+AGG | - | chr6.4:51006919-51006938 | MS.gene27375:intron | 35.0% | |
| AGAGAGCAAGACAAAAGAAA+GGG | - | chr6.4:51006920-51006939 | MS.gene27375:intron | 35.0% | |
| CTAGTAACCTTTGCATATAG+TGG | - | chr6.4:51007368-51007387 | MS.gene27375:CDS | 35.0% | |
| GAAGCTCAACAGATATTCTA+TGG | + | chr6.4:51007143-51007162 | None:intergenic | 35.0% | |
| GCTTCAAGAGAAAATGATGA+AGG | - | chr6.4:51006804-51006823 | MS.gene27375:intron | 35.0% | |
| ! | TGGATGTCTAGTTTCTGATA+TGG | + | chr6.4:51007467-51007486 | None:intergenic | 35.0% |
| !! | AGAAAAGTGCTAGAAGAATC+AGG | - | chr6.4:51006832-51006851 | MS.gene27375:intron | 35.0% |
| AAAGGATAGCTAACATACGG+AGG | + | chr6.4:51006561-51006580 | None:intergenic | 40.0% | |
| AGACATACATTATCTCGTGG+AGG | - | chr6.4:51006772-51006791 | MS.gene27375:intron | 40.0% | |
| AGAGCAAGACAAAAGAAAGG+GGG | - | chr6.4:51006922-51006941 | MS.gene27375:intron | 40.0% | |
| AGGATTGCCACTATATGCAA+AGG | + | chr6.4:51007378-51007397 | None:intergenic | 40.0% | |
| AGGCAAAAAGTCAAAAGGGT+AGG | - | chr6.4:51006725-51006744 | MS.gene27375:intron | 40.0% | |
| CTCTACCTCTATCAGTTAGT+TGG | - | chr6.4:51007055-51007074 | MS.gene27375:intron | 40.0% | |
| GAGAGCAAGACAAAAGAAAG+GGG | - | chr6.4:51006921-51006940 | MS.gene27375:intron | 40.0% | |
| GGCAAAAAGTCAAAAGGGTA+GGG | - | chr6.4:51006726-51006745 | MS.gene27375:intron | 40.0% | |
| TCATAACAGACAGACAGTGT+AGG | + | chr6.4:51007103-51007122 | None:intergenic | 40.0% | |
| TTCCATGTATCATGACGTGA+CGG | + | chr6.4:51006901-51006920 | None:intergenic | 40.0% | |
| TTCTGCCAACTAACTGATAG+AGG | + | chr6.4:51007063-51007082 | None:intergenic | 40.0% | |
| TTGCATATAGTGGCAATCCT+TGG | - | chr6.4:51007378-51007397 | MS.gene27375:CDS | 40.0% | |
| ! | GTTTAAGGCACAACTCACAT+CGG | - | chr6.4:51006503-51006522 | MS.gene27375:CDS | 40.0% |
| CATCGGTATTTCGAGACTCA+AGG | + | chr6.4:51006611-51006630 | None:intergenic | 45.0% | |
| GATAGCTAACATACGGAGGA+GGG | + | chr6.4:51006557-51006576 | None:intergenic | 45.0% | |
| GATTGAGGATGAGTCTGTGA+TGG | + | chr6.4:51007487-51007506 | None:intergenic | 45.0% | |
| TCAAAAGGGTAGGGATTGTG+TGG | - | chr6.4:51006735-51006754 | MS.gene27375:intron | 45.0% | |
| ! | GTTGTGCATGGAAGCACAAA+AGG | - | chr6.4:51007522-51007541 | MS.gene27375:CDS | 45.0% |
| CATGTATCATGACGTGACGG+AGG | + | chr6.4:51006898-51006917 | None:intergenic | 50.0% | |
| CTCCGTCACGTCATGATACA+TGG | - | chr6.4:51006896-51006915 | MS.gene27375:intron | 50.0% | |
| GGATAGCTAACATACGGAGG+AGG | + | chr6.4:51006558-51006577 | None:intergenic | 50.0% | |
| ! | AGGGGGAGAGTATACATCAG+AGG | - | chr6.4:51006939-51006958 | MS.gene27375:intron | 50.0% |
| !! | AACATACGGAGGAGGGCGTT+CGG | + | chr6.4:51006550-51006569 | None:intergenic | 55.0% |
| ! | GGCACGGTGGAACGGGTTTA+AGG | - | chr6.4:51006488-51006507 | MS.gene27375:CDS | 60.0% |
| ! | TGGATGGGGGCACGGTGGAA+CGG | - | chr6.4:51006480-51006499 | MS.gene27375:CDS | 65.0% |
| !! | GGAGGAGGGCGTTCGGCTTT+GGG | + | chr6.4:51006543-51006562 | None:intergenic | 65.0% |
| ! | GGATGGGGGCACGGTGGAAC+GGG | - | chr6.4:51006481-51006500 | MS.gene27375:CDS | 70.0% |
| ! | TGGTGTGGATGGGGGCACGG+TGG | - | chr6.4:51006475-51006494 | MS.gene27375:CDS | 70.0% |
| !! | CGGAGGAGGGCGTTCGGCTT+TGG | + | chr6.4:51006544-51006563 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.4 | gene | 51006474 | 51007650 | 51006474 | ID=MS.gene27375 |
| chr6.4 | mRNA | 51006474 | 51007650 | 51006474 | ID=MS.gene27375.t1;Parent=MS.gene27375 |
| chr6.4 | exon | 51007486 | 51007650 | 51007486 | ID=MS.gene27375.t1.exon1;Parent=MS.gene27375.t1 |
| chr6.4 | CDS | 51007486 | 51007650 | 51007486 | ID=cds.MS.gene27375.t1;Parent=MS.gene27375.t1 |
| chr6.4 | exon | 51007137 | 51007397 | 51007137 | ID=MS.gene27375.t1.exon2;Parent=MS.gene27375.t1 |
| chr6.4 | CDS | 51007137 | 51007397 | 51007137 | ID=cds.MS.gene27375.t1;Parent=MS.gene27375.t1 |
| chr6.4 | exon | 51006474 | 51006533 | 51006474 | ID=MS.gene27375.t1.exon3;Parent=MS.gene27375.t1 |
| chr6.4 | CDS | 51006474 | 51006533 | 51006474 | ID=cds.MS.gene27375.t1;Parent=MS.gene27375.t1 |
| Gene Sequence |
| Protein sequence |
