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.gene26560.t1 | AFK38978.1 | 90.4 | 198 | 14 | 3 | 1 | 195 | 1 | 196 | 1.10E-89 | 339.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene26560.t1 | Q9XIM0 | 59.3 | 172 | 65 | 3 | 27 | 195 | 34 | 203 | 4.0e-51 | 202.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene26560.t1 | I3SFD6 | 90.4 | 198 | 14 | 3 | 1 | 195 | 1 | 196 | 8.3e-90 | 339.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050702 | MS.gene26560 | -0.822958 | 1.79E-53 | -1.69E-46 |
| MS.gene052224 | MS.gene26560 | -0.844623 | 6.74E-59 | -1.69E-46 |
| MS.gene053401 | MS.gene26560 | 0.844198 | 8.77E-59 | -1.69E-46 |
| MS.gene059856 | MS.gene26560 | 0.8246 | 7.39E-54 | -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.gene26560.t1 | MTR_4g087160 | 90.000 | 200 | 11 | 4 | 1 | 195 | 1 | 196 | 1.82e-122 | 344 |
| MS.gene26560.t1 | MTR_4g087160 | 87.000 | 200 | 10 | 5 | 1 | 195 | 1 | 189 | 3.15e-114 | 323 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene26560.t1 | AT2G15890 | 59.302 | 172 | 64 | 3 | 27 | 195 | 35 | 203 | 3.31e-64 | 197 |
| MS.gene26560.t1 | AT2G15890 | 50.888 | 169 | 55 | 3 | 27 | 195 | 35 | 175 | 2.09e-48 | 156 |
Find 37 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCATCTCATCAGCAGATTT+TGG | 0.216032 | 4.1:-22930190 | None:intergenic |
| TCAAGTTTGGTTCGGCTAAA+AGG | 0.273045 | 4.1:-22928901 | None:intergenic |
| GGTGGTGTAAAATCTTTAAT+AGG | 0.274831 | 4.1:+22930055 | MS.gene26560:CDS |
| TTCTTCTGAATTTATTTCAT+TGG | 0.310693 | 4.1:-22930134 | None:intergenic |
| AATAATGGAAGAAGGAAGTT+TGG | 0.327631 | 4.1:-22928836 | None:intergenic |
| GGAAGTTTGGTTGAAGAAGT+TGG | 0.331092 | 4.1:-22928823 | None:intergenic |
| TCTAGAAGAACAACAAATAA+TGG | 0.365979 | 4.1:-22928851 | None:intergenic |
| ATGATCATCAATCTGTTTCA+TGG | 0.375107 | 4.1:-22930306 | None:intergenic |
| GAGAGGCTGATTATTGAGAT+TGG | 0.379912 | 4.1:+22930034 | MS.gene26560:CDS |
| AAAATCTGAGAAAGATCTCT+TGG | 0.387196 | 4.1:+22928954 | MS.gene26560:CDS |
| CGACTCTGTCAAGTTTGGTT+CGG | 0.395191 | 4.1:-22928909 | None:intergenic |
| GAAGTTTGGTTGAAGAAGTT+GGG | 0.409888 | 4.1:-22928822 | None:intergenic |
| AAGCTTAGTATATGATGAAT+CGG | 0.411714 | 4.1:-22930236 | None:intergenic |
| CGGCTAAAAGGTTCAAGCTT+AGG | 0.425055 | 4.1:-22928889 | None:intergenic |
| TTTAGCGACTCTGTCAAGTT+TGG | 0.428057 | 4.1:-22928914 | None:intergenic |
| CATCAATCTGTTTCATGGTC+TGG | 0.432374 | 4.1:-22930301 | None:intergenic |
| GTGATGAATCATATAGTTGC+TGG | 0.434059 | 4.1:+22929077 | MS.gene26560:CDS |
| TTTGGTAATCCATCTGGTCT+AGG | 0.470690 | 4.1:-22930172 | None:intergenic |
| TTGTTTGGTAGATTATTGTT+CGG | 0.474583 | 4.1:+22929045 | MS.gene26560:intron |
| TACTAAGCTTCTTAGATCCA+TGG | 0.476278 | 4.1:+22930249 | MS.gene26560:CDS |
| CAAGCTTAGGAATGAAAGGT+TGG | 0.486187 | 4.1:-22928876 | None:intergenic |
| AAATCTGAGAAAGATCTCTT+GGG | 0.506201 | 4.1:+22928955 | MS.gene26560:CDS |
| GGTTCAAGCTTAGGAATGAA+AGG | 0.526887 | 4.1:-22928880 | None:intergenic |
| AGCTTAGTATATGATGAATC+GGG | 0.532767 | 4.1:-22930235 | None:intergenic |
| AAAATCTGCTGATGAGATGA+TGG | 0.537445 | 4.1:+22930192 | MS.gene26560:CDS |
| GATTATTGTTCGGTACTTGA+AGG | 0.537788 | 4.1:+22929055 | MS.gene26560:intron |
| GAACAACAAATAATGGAAGA+AGG | 0.539572 | 4.1:-22928844 | None:intergenic |
| ACTAAGCTTCTTAGATCCAT+GGG | 0.550589 | 4.1:+22930250 | MS.gene26560:CDS |
| AATGTTTGTCCTAGACCAGA+TGG | 0.557161 | 4.1:+22930163 | MS.gene26560:CDS |
| CATCTAAAGCAGAGATAGAG+AGG | 0.558480 | 4.1:+22930017 | MS.gene26560:CDS |
| TGAATCATATAGTTGCTGGC+AGG | 0.600681 | 4.1:+22929081 | MS.gene26560:CDS |
| TTGCGATGAAGAAACAGAGA+AGG | 0.609056 | 4.1:-22928799 | None:intergenic |
| CCATGCAGGTGACTTTCCCA+TGG | 0.612938 | 4.1:-22930266 | None:intergenic |
| GGTGCTTCAGAATACCATGC+AGG | 0.623000 | 4.1:-22930280 | None:intergenic |
| AGGCTGATTATTGAGATTGG+TGG | 0.626912 | 4.1:+22930037 | MS.gene26560:CDS |
| CCATGGGAAAGTCACCTGCA+TGG | 0.641511 | 4.1:+22930266 | MS.gene26560:CDS |
| TCTTTAATAGGATGTTTACA+CGG | 0.646922 | 4.1:+22930067 | MS.gene26560:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTAAAAATAGAAACAAATT+TGG | - | chr4.1:22929269-22929288 | None:intergenic | 10.0% |
| !!! | ATTCATATTTTTATGTTAAA+AGG | - | chr4.1:22929466-22929485 | None:intergenic | 10.0% |
| !!! | TTATTTATGTTATTTGATTT+TGG | + | chr4.1:22929013-22929032 | MS.gene26560:intron | 10.0% |
| !! | AAAATTAAATGAATAACAAC+AGG | - | chr4.1:22929165-22929184 | None:intergenic | 15.0% |
| !! | AATATTTAAGCATAATTAAG+GGG | - | chr4.1:22929943-22929962 | None:intergenic | 15.0% |
| !! | GAATATTTAAGCATAATTAA+GGG | - | chr4.1:22929944-22929963 | None:intergenic | 15.0% |
| !! | TGAATATTTAAGCATAATTA+AGG | - | chr4.1:22929945-22929964 | None:intergenic | 15.0% |
| !!! | CAATTTTTTGATGAAAAAAT+AGG | + | chr4.1:22929687-22929706 | MS.gene26560:intron | 15.0% |
| !!! | CTATTTTTTCATCAAAAAAT+TGG | - | chr4.1:22929689-22929708 | None:intergenic | 15.0% |
| !!! | TTTTAAATTCACAAAGAATA+TGG | + | chr4.1:22929282-22929301 | MS.gene26560:intron | 15.0% |
| !! | AATCTAACAAAATTTCATGA+TGG | - | chr4.1:22929750-22929769 | None:intergenic | 20.0% |
| !! | TAAAACAAGTGAGAAAATTA+AGG | + | chr4.1:22929401-22929420 | MS.gene26560:intron | 20.0% |
| !! | TTCTTCTGAATTTATTTCAT+TGG | - | chr4.1:22930137-22930156 | None:intergenic | 20.0% |
| !!! | ACTTTCATTTGTTTGTTTTT+TGG | + | chr4.1:22929813-22929832 | MS.gene26560:intron | 20.0% |
| !!! | TTTTGGTTTATGATTTTGTT+TGG | + | chr4.1:22929030-22929049 | MS.gene26560:intron | 20.0% |
| ! | AAATTATATAGCCTGACATT+TGG | - | chr4.1:22929779-22929798 | None:intergenic | 25.0% |
| ! | AAGCTTAGTATATGATGAAT+CGG | - | chr4.1:22930239-22930258 | None:intergenic | 25.0% |
| ! | ACACGAAATAAGAAAGAAAA+CGG | - | chr4.1:22928987-22929006 | None:intergenic | 25.0% |
| ! | TAGTCACATATAGTCAAAAT+AGG | - | chr4.1:22929337-22929356 | None:intergenic | 25.0% |
| ! | TCTAGAAGAACAACAAATAA+TGG | - | chr4.1:22928854-22928873 | None:intergenic | 25.0% |
| ! | TCTTTAATAGGATGTTTACA+CGG | + | chr4.1:22930067-22930086 | MS.gene26560:CDS | 25.0% |
| ! | TTGTTTGGTAGATTATTGTT+CGG | + | chr4.1:22929045-22929064 | MS.gene26560:intron | 25.0% |
| !!! | TTCTCAGATTTTTCAATCAA+AGG | - | chr4.1:22928946-22928965 | None:intergenic | 25.0% |
| AAAATCTGAGAAAGATCTCT+TGG | + | chr4.1:22928954-22928973 | MS.gene26560:CDS | 30.0% | |
| AAATCTGAGAAAGATCTCTT+GGG | + | chr4.1:22928955-22928974 | MS.gene26560:CDS | 30.0% | |
| ACACAGAAACAGAAAAATCA+GGG | - | chr4.1:22929216-22929235 | None:intergenic | 30.0% | |
| AGCTTAGTATATGATGAATC+GGG | - | chr4.1:22930238-22930257 | None:intergenic | 30.0% | |
| ATGCGTAAACTGAAAAAGAA+TGG | + | chr4.1:22930100-22930119 | MS.gene26560:CDS | 30.0% | |
| ATGTGACTATAGATAGAACA+TGG | + | chr4.1:22929348-22929367 | MS.gene26560:intron | 30.0% | |
| GAAACAAATTTGGTCAAGAA+AGG | - | chr4.1:22929259-22929278 | None:intergenic | 30.0% | |
| GAACATCTGTTTATAGTTGA+AGG | - | chr4.1:22929896-22929915 | None:intergenic | 30.0% | |
| GGTGGTGTAAAATCTTTAAT+AGG | + | chr4.1:22930055-22930074 | MS.gene26560:CDS | 30.0% | |
| TAGAAACACAAGGAATTCAT+TGG | + | chr4.1:22929917-22929936 | MS.gene26560:intron | 30.0% | |
| ! | AATAATGGAAGAAGGAAGTT+TGG | - | chr4.1:22928839-22928858 | None:intergenic | 30.0% |
| ! | ATCATTGATGTGTTGATCTT+CGG | + | chr4.1:22929607-22929626 | MS.gene26560:intron | 30.0% |
| ! | GAACAACAAATAATGGAAGA+AGG | - | chr4.1:22928847-22928866 | None:intergenic | 30.0% |
| ! | TCTTCTTTGTTTGAGAGATT+TGG | + | chr4.1:22929184-22929203 | MS.gene26560:intron | 30.0% |
| !! | CAGATTTTTCAATCAAAGGA+AGG | - | chr4.1:22928942-22928961 | None:intergenic | 30.0% |
| AAAATCTGCTGATGAGATGA+TGG | + | chr4.1:22930192-22930211 | MS.gene26560:CDS | 35.0% | |
| ACTAAGCTTCTTAGATCCAT+GGG | + | chr4.1:22930250-22930269 | MS.gene26560:CDS | 35.0% | |
| ACTCCTTCTGTAAAAGATTG+TGG | - | chr4.1:22929997-22930016 | None:intergenic | 35.0% | |
| AGATTTAGAGACCAAATGTC+AGG | + | chr4.1:22929765-22929784 | MS.gene26560:intron | 35.0% | |
| AGTCAAAATAGGACATCTCA+TGG | - | chr4.1:22929326-22929345 | None:intergenic | 35.0% | |
| CAGATGTTCTTAGAAACACA+AGG | + | chr4.1:22929907-22929926 | MS.gene26560:intron | 35.0% | |
| GAAGTTTGGTTGAAGAAGTT+GGG | - | chr4.1:22928825-22928844 | None:intergenic | 35.0% | |
| GACACAGAAACAGAAAAATC+AGG | - | chr4.1:22929217-22929236 | None:intergenic | 35.0% | |
| GATTATTGTTCGGTACTTGA+AGG | + | chr4.1:22929055-22929074 | MS.gene26560:intron | 35.0% | |
| GTGATGAATCATATAGTTGC+TGG | + | chr4.1:22929077-22929096 | MS.gene26560:CDS | 35.0% | |
| TAAAAGATTGTGGAGAGGAA+TGG | - | chr4.1:22929987-22930006 | None:intergenic | 35.0% | |
| TACTAAGCTTCTTAGATCCA+TGG | + | chr4.1:22930249-22930268 | MS.gene26560:CDS | 35.0% | |
| TAGTTGAAGGCTAGTACAAT+AGG | - | chr4.1:22929883-22929902 | None:intergenic | 35.0% | |
| TTCTGTAAAAGATTGTGGAG+AGG | - | chr4.1:22929992-22930011 | None:intergenic | 35.0% | |
| ! | ATCATCTCATCAGCAGATTT+TGG | - | chr4.1:22930193-22930212 | None:intergenic | 35.0% |
| ! | TCTCCACAATCTTTTACAGA+AGG | + | chr4.1:22929991-22930010 | MS.gene26560:intron | 35.0% |
| AATGTTTGTCCTAGACCAGA+TGG | + | chr4.1:22930163-22930182 | MS.gene26560:CDS | 40.0% | |
| AGGCTGATTATTGAGATTGG+TGG | + | chr4.1:22930037-22930056 | MS.gene26560:CDS | 40.0% | |
| CAAGCTTAGGAATGAAAGGT+TGG | - | chr4.1:22928879-22928898 | None:intergenic | 40.0% | |
| GAGAGGCTGATTATTGAGAT+TGG | + | chr4.1:22930034-22930053 | MS.gene26560:CDS | 40.0% | |
| GGAAGTTTGGTTGAAGAAGT+TGG | - | chr4.1:22928826-22928845 | None:intergenic | 40.0% | |
| GGTTCAAGCTTAGGAATGAA+AGG | - | chr4.1:22928883-22928902 | None:intergenic | 40.0% | |
| TGAATCATATAGTTGCTGGC+AGG | + | chr4.1:22929081-22929100 | MS.gene26560:CDS | 40.0% | |
| TTGCGATGAAGAAACAGAGA+AGG | - | chr4.1:22928802-22928821 | None:intergenic | 40.0% | |
| TTTAGCGACTCTGTCAAGTT+TGG | - | chr4.1:22928917-22928936 | None:intergenic | 40.0% | |
| ! | CATCTAAAGCAGAGATAGAG+AGG | + | chr4.1:22930017-22930036 | MS.gene26560:CDS | 40.0% |
| ! | TTTGGTAATCCATCTGGTCT+AGG | - | chr4.1:22930175-22930194 | None:intergenic | 40.0% |
| !! | GCAGATTTTGGTAATCCATC+TGG | - | chr4.1:22930181-22930200 | None:intergenic | 40.0% |
| !! | TCAAGTTTGGTTCGGCTAAA+AGG | - | chr4.1:22928904-22928923 | None:intergenic | 40.0% |
| CGACTCTGTCAAGTTTGGTT+CGG | - | chr4.1:22928912-22928931 | None:intergenic | 45.0% | |
| CGGCTAAAAGGTTCAAGCTT+AGG | - | chr4.1:22928892-22928911 | None:intergenic | 45.0% | |
| !! | CATAAAAAAAAAAAAAAATA+TGG | + | chr4.1:22929489-22929508 | MS.gene26560:intron | 5.0% |
| GGTGCTTCAGAATACCATGC+AGG | - | chr4.1:22930283-22930302 | None:intergenic | 50.0% | |
| CCATGCAGGTGACTTTCCCA+TGG | - | chr4.1:22930269-22930288 | None:intergenic | 55.0% | |
| CCATGGGAAAGTCACCTGCA+TGG | + | chr4.1:22930266-22930285 | MS.gene26560:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 22928775 | 22930321 | 22928775 | ID=MS.gene26560 |
| chr4.1 | mRNA | 22928775 | 22930321 | 22928775 | ID=MS.gene26560.t1;Parent=MS.gene26560 |
| chr4.1 | exon | 22928775 | 22928976 | 22928775 | ID=MS.gene26560.t1.exon1;Parent=MS.gene26560.t1 |
| chr4.1 | CDS | 22928775 | 22928976 | 22928775 | ID=cds.MS.gene26560.t1;Parent=MS.gene26560.t1 |
| chr4.1 | exon | 22929056 | 22929129 | 22929056 | ID=MS.gene26560.t1.exon2;Parent=MS.gene26560.t1 |
| chr4.1 | CDS | 22929056 | 22929129 | 22929056 | ID=cds.MS.gene26560.t1;Parent=MS.gene26560.t1 |
| chr4.1 | exon | 22930010 | 22930321 | 22930010 | ID=MS.gene26560.t1.exon3;Parent=MS.gene26560.t1 |
| chr4.1 | CDS | 22930010 | 22930321 | 22930010 | ID=cds.MS.gene26560.t1;Parent=MS.gene26560.t1 |
| Gene Sequence |
| Protein sequence |
