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.gene53903.t1 | XP_013443594.1 | 98.2 | 111 | 2 | 0 | 1 | 111 | 53 | 163 | 2.80E-48 | 201.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53903.t1 | B9RW00 | 70.3 | 111 | 33 | 0 | 1 | 111 | 53 | 163 | 1.8e-35 | 149.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53903.t1 | A0A072TJ77 | 98.2 | 111 | 2 | 0 | 1 | 111 | 53 | 163 | 2.0e-48 | 201.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051422 | MS.gene53903 | 0.812239 | 4.69E-51 | -1.69E-46 |
| MS.gene051651 | MS.gene53903 | 0.81361 | 2.35E-51 | -1.69E-46 |
| MS.gene057717 | MS.gene53903 | 0.807634 | 4.59E-50 | -1.69E-46 |
| MS.gene058067 | MS.gene53903 | 0.804725 | 1.88E-49 | -1.69E-46 |
| MS.gene059069 | MS.gene53903 | 0.992559 | 5.05E-194 | -1.69E-46 |
| MS.gene059070 | MS.gene53903 | 0.983605 | 3.34E-158 | -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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 59 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTCATGTGATTGCAAAATT+TGG | 0.163683 | 4.2:-61007298 | None:intergenic |
| AACTCTAATGTAACTGTCTA+TGG | 0.250820 | 4.2:+61006318 | MS.gene53903:CDS |
| ACTTGTGGTCGCCATGGATA+TGG | 0.315968 | 4.2:+61006383 | MS.gene53903:CDS |
| GCTTTAGTCGCTAGTTTCAT+TGG | 0.393377 | 4.2:+61007324 | MS.gene53903:CDS |
| CTCAAGCATCTCTGCAGCTT+TGG | 0.400682 | 4.2:+61007209 | MS.gene53903:CDS |
| GTCATGTGATTGCAAAATTT+GGG | 0.430792 | 4.2:-61007297 | None:intergenic |
| CGCCAGAGCAAGCTTTCTGC+AGG | 0.458432 | 4.2:-61006360 | None:intergenic |
| GCTGCTTGGCTACCGATTTG+TGG | 0.463642 | 4.2:+61007267 | MS.gene53903:CDS |
| TTCCTGCAGAAAGCTTGCTC+TGG | 0.469885 | 4.2:+61006358 | MS.gene53903:CDS |
| ATGGAAACAATTATGCTGCT+TGG | 0.504739 | 4.2:+61007253 | MS.gene53903:CDS |
| ATAGCTCAAGTGGCAAAGAA+TGG | 0.508607 | 4.2:+61007234 | MS.gene53903:CDS |
| TTGGGAACTGAACCACAAAT+CGG | 0.511633 | 4.2:-61007279 | None:intergenic |
| AGGGTCAAGGACAGTATGAA+TGG | 0.516263 | 4.2:-61007379 | None:intergenic |
| AAGCTTGCTCTGGCGACTTG+TGG | 0.523109 | 4.2:+61006368 | MS.gene53903:CDS |
| TTCTCAAAAGGAGAGGGTCA+AGG | 0.544463 | 4.2:-61007392 | None:intergenic |
| CTGGCGACTTGTGGTCGCCA+TGG | 0.548545 | 4.2:+61006377 | MS.gene53903:CDS |
| AGCTTTGGCTATAGCTCAAG+TGG | 0.581117 | 4.2:+61007224 | MS.gene53903:CDS |
| TTAGGACATTACCATATCCA+TGG | 0.585943 | 4.2:-61006394 | None:intergenic |
| AGCTTTCTGCAGGAAGAAAG+AGG | 0.586262 | 4.2:-61006350 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAGAAATGCTAAATTATTA+TGG | + | chr4.2:61007117-61007136 | MS.gene53903:intron | 15.0% |
| !!! | ATTTTATATGATCAAACTTA+GGG | - | chr4.2:61006908-61006927 | None:intergenic | 15.0% |
| !!! | GTTTTATTTTTATGGATTTA+AGG | - | chr4.2:61006838-61006857 | None:intergenic | 15.0% |
| !!! | TATTTTATATGATCAAACTT+AGG | - | chr4.2:61006909-61006928 | None:intergenic | 15.0% |
| !! | AAGAACAAATGTTTCAAATT+TGG | - | chr4.2:61006508-61006527 | None:intergenic | 20.0% |
| !! | ATGCTAAATTATTATGGTTA+TGG | + | chr4.2:61007123-61007142 | MS.gene53903:intron | 20.0% |
| !! | CAAACATTATATGACTTAAA+TGG | - | chr4.2:61006640-61006659 | None:intergenic | 20.0% |
| !!! | ATGAGAAGGTTTTATTTTTA+TGG | - | chr4.2:61006846-61006865 | None:intergenic | 20.0% |
| !!! | CTAACCAATGTATAATTTTT+CGG | + | chr4.2:61007021-61007040 | MS.gene53903:intron | 20.0% |
| !!! | TATTTTTATGGATTTAAGGT+TGG | - | chr4.2:61006834-61006853 | None:intergenic | 20.0% |
| !!! | TTTAATTGATTTTTATGAGC+AGG | + | chr4.2:61007167-61007186 | MS.gene53903:intron | 20.0% |
| !!! | TTTTCGTTTTTTCATTTCAT+TGG | - | chr4.2:61007099-61007118 | None:intergenic | 20.0% |
| ! | ATGATAAAGAGGTTAACTTT+AGG | - | chr4.2:61006415-61006434 | None:intergenic | 25.0% |
| ! | ATTAGAATACTAGTTATGTC+TGG | + | chr4.2:61006953-61006972 | MS.gene53903:intron | 25.0% |
| ! | GACATAACTAGTATTCTAAT+AGG | - | chr4.2:61006953-61006972 | None:intergenic | 25.0% |
| ! | TAAGTCATATAATGTTTGCA+TGG | + | chr4.2:61006642-61006661 | MS.gene53903:intron | 25.0% |
| ! | TATGAACTCTTTAACATAGT+TGG | - | chr4.2:61006682-61006701 | None:intergenic | 25.0% |
| ! | TATGTTAAAGAGTTCATACA+TGG | + | chr4.2:61006684-61006703 | MS.gene53903:intron | 25.0% |
| !! | TTTGAAACATTTGTTCTTCA+TGG | + | chr4.2:61006510-61006529 | MS.gene53903:intron | 25.0% |
| !!! | GTTCTTCATGGTTTTTAAAA+TGG | + | chr4.2:61006522-61006541 | MS.gene53903:intron | 25.0% |
| AAAGTTCTTGCATGATAAAG+AGG | - | chr4.2:61006426-61006445 | None:intergenic | 30.0% | |
| AACACGTCAAACAATAAACT+TGG | - | chr4.2:61007060-61007079 | None:intergenic | 30.0% | |
| AACTCTAATGTAACTGTCTA+TGG | + | chr4.2:61006318-61006337 | MS.gene53903:CDS | 30.0% | |
| AACTCTTTAACATAGTTGGA+TGG | - | chr4.2:61006678-61006697 | None:intergenic | 30.0% | |
| GTCATGTGATTGCAAAATTT+GGG | - | chr4.2:61007300-61007319 | None:intergenic | 30.0% | |
| TCAGCCGAAAAATTATACAT+TGG | - | chr4.2:61007028-61007047 | None:intergenic | 30.0% | |
| TGTCATGTGATTGCAAAATT+TGG | - | chr4.2:61007301-61007320 | None:intergenic | 30.0% | |
| ! | AAATTTTGCAATCACATGAC+AGG | + | chr4.2:61007300-61007319 | MS.gene53903:CDS | 30.0% |
| ! | AAGTTTTTCTCAAAAGGAGA+GGG | - | chr4.2:61007401-61007420 | None:intergenic | 30.0% |
| ! | GCATTTTTGTTAGTTGAGTT+AGG | + | chr4.2:61006595-61006614 | MS.gene53903:intron | 30.0% |
| ! | TGTAACTGTCTATGGATTTT+TGG | + | chr4.2:61006326-61006345 | MS.gene53903:CDS | 30.0% |
| !!! | CTTCATGGTTTTTAAAATGG+AGG | + | chr4.2:61006525-61006544 | MS.gene53903:intron | 30.0% |
| ATGGAAACAATTATGCTGCT+TGG | + | chr4.2:61007253-61007272 | MS.gene53903:CDS | 35.0% | |
| GAATACTAGTTATGTCTGGA+TGG | + | chr4.2:61006957-61006976 | MS.gene53903:intron | 35.0% | |
| GTAAAGTCAGACGTTATGAT+CGG | - | chr4.2:61006568-61006587 | None:intergenic | 35.0% | |
| TAAAGTCAGACGTTATGATC+GGG | - | chr4.2:61006567-61006586 | None:intergenic | 35.0% | |
| TGGATGGAGATTAAGTCTAT+AGG | + | chr4.2:61006973-61006992 | MS.gene53903:intron | 35.0% | |
| TTAGGACATTACCATATCCA+TGG | - | chr4.2:61006397-61006416 | None:intergenic | 35.0% | |
| ! | ACATTGGTTAGTCACACATT+GGG | - | chr4.2:61007012-61007031 | None:intergenic | 35.0% |
| ! | CAAGTTTTTCTCAAAAGGAG+AGG | - | chr4.2:61007402-61007421 | None:intergenic | 35.0% |
| ! | TACATTGGTTAGTCACACAT+TGG | - | chr4.2:61007013-61007032 | None:intergenic | 35.0% |
| !! | TATGGATTTAAGGTTGGTGA+TGG | - | chr4.2:61006828-61006847 | None:intergenic | 35.0% |
| !!! | GGTTTTTAAAATGGAGGTGT+TGG | + | chr4.2:61006531-61006550 | MS.gene53903:intron | 35.0% |
| AAAGTCAGACGTTATGATCG+GGG | - | chr4.2:61006566-61006585 | None:intergenic | 40.0% | |
| ATAGCTCAAGTGGCAAAGAA+TGG | + | chr4.2:61007234-61007253 | MS.gene53903:CDS | 40.0% | |
| TTGGGAACTGAACCACAAAT+CGG | - | chr4.2:61007282-61007301 | None:intergenic | 40.0% | |
| ! | GCTTTAGTCGCTAGTTTCAT+TGG | + | chr4.2:61007324-61007343 | MS.gene53903:CDS | 40.0% |
| AGCGTGTTTGAGAGATGAGA+AGG | - | chr4.2:61006860-61006879 | None:intergenic | 45.0% | |
| AGCTTTCTGCAGGAAGAAAG+AGG | - | chr4.2:61006353-61006372 | None:intergenic | 45.0% | |
| AGGGTCAAGGACAGTATGAA+TGG | - | chr4.2:61007382-61007401 | None:intergenic | 45.0% | |
| TTCTCAAAAGGAGAGGGTCA+AGG | - | chr4.2:61007395-61007414 | None:intergenic | 45.0% | |
| ! | AGCTTTGGCTATAGCTCAAG+TGG | + | chr4.2:61007224-61007243 | MS.gene53903:CDS | 45.0% |
| ACTTGTGGTCGCCATGGATA+TGG | + | chr4.2:61006383-61006402 | MS.gene53903:CDS | 50.0% | |
| CTCAAGCATCTCTGCAGCTT+TGG | + | chr4.2:61007209-61007228 | MS.gene53903:CDS | 50.0% | |
| ! | TTCCTGCAGAAAGCTTGCTC+TGG | + | chr4.2:61006358-61006377 | MS.gene53903:CDS | 50.0% |
| ! | AAGCTTGCTCTGGCGACTTG+TGG | + | chr4.2:61006368-61006387 | MS.gene53903:CDS | 55.0% |
| !! | GCTGCTTGGCTACCGATTTG+TGG | + | chr4.2:61007267-61007286 | MS.gene53903:CDS | 55.0% |
| CGCCAGAGCAAGCTTTCTGC+AGG | - | chr4.2:61006363-61006382 | None:intergenic | 60.0% | |
| CTGGCGACTTGTGGTCGCCA+TGG | + | chr4.2:61006377-61006396 | MS.gene53903:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.2 | gene | 61006302 | 61007422 | 61006302 | ID=MS.gene53903 |
| chr4.2 | mRNA | 61006302 | 61007422 | 61006302 | ID=MS.gene53903.t1;Parent=MS.gene53903 |
| chr4.2 | exon | 61006302 | 61006404 | 61006302 | ID=MS.gene53903.t1.exon1;Parent=MS.gene53903.t1 |
| chr4.2 | CDS | 61006302 | 61006404 | 61006302 | ID=cds.MS.gene53903.t1;Parent=MS.gene53903.t1 |
| chr4.2 | exon | 61007189 | 61007422 | 61007189 | ID=MS.gene53903.t1.exon2;Parent=MS.gene53903.t1 |
| chr4.2 | CDS | 61007189 | 61007422 | 61007189 | ID=cds.MS.gene53903.t1;Parent=MS.gene53903.t1 |
| Gene Sequence |
| Protein sequence |
