Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1287120 | KEH19588.1 | 68.148 | 135 | 17 | 1 | 48 | 156 | 1 | 135 | 8.69e-52 | 171 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1287120 | sp|P43450|CDK2_CARAU | 30.709 | 127 | 57 | 2 | 55 | 154 | 38 | 160 | 2.92e-13 | 68.9 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1287120 | A0A072TRV9 | 68.148 | 135 | 17 | 1 | 48 | 156 | 1 | 135 | 4.15e-52 | 171 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1287120 | MtrunA17_Chr8g0360761 | 63.768 | 69 | 19 | 1 | 48 | 110 | 1 | 69 | 2.93e-22 | 87.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1287120 | AT3G48750.1 | 26.772 | 127 | 63 | 2 | 55 | 154 | 38 | 161 | 7.47e-11 | 59.3 |
Find 24 sgRNAs with CRISPR-Local
Find 100 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGATTGACCCGACAATAT+TGG | 0.287098 | 8_3:+36845892 | None:intergenic |
| AAGATTGACCCGACAATATT+GGG | 0.288955 | 8_3:+36845893 | None:intergenic |
| ATAGCACATATAAAGATTAT+AGG | 0.319668 | 8_3:-36846078 | Msa1287120:CDS |
| TCTGAAATCTAATAATATTC+TGG | 0.322462 | 8_3:-36845226 | Msa1287120:CDS |
| CATTTATTCATTAATAGAGT+AGG | 0.416373 | 8_3:+36845122 | None:intergenic |
| TTTCTGCGCGAAGCTCTCTC+TGG | 0.453710 | 8_3:-36845288 | Msa1287120:CDS |
| TTAATAGAGTAGGGTGAAAG+AGG | 0.470772 | 8_3:+36845132 | None:intergenic |
| ATTTATTCATTAATAGAGTA+GGG | 0.477489 | 8_3:+36845123 | None:intergenic |
| GCGCGAAGCTCTCTCTGGAT+TGG | 0.483287 | 8_3:-36845283 | Msa1287120:CDS |
| GCAGACAGTGATGGATACTA+AGG | 0.513905 | 8_3:-36845674 | Msa1287120:CDS |
| TTGAACCACCCCAATATTGT+CGG | 0.538171 | 8_3:-36845902 | Msa1287120:CDS |
| TTCTGGAATGGTTAAAACCA+TGG | 0.568765 | 8_3:+36845985 | None:intergenic |
| TGAACCACCCCAATATTGTC+GGG | 0.575644 | 8_3:-36845901 | Msa1287120:intron |
| ATTCAGATTGCAGACAGTGA+TGG | 0.585377 | 8_3:-36845683 | Msa1287120:intron |
| TGATAACTGCAGAAGGTGGA+AGG | 0.590352 | 8_3:-36846054 | Msa1287120:CDS |
| ATAGAGTAGGGTGAAAGAGG+AGG | 0.608366 | 8_3:+36845135 | None:intergenic |
| TATAGGCTGATAACTGCAGA+AGG | 0.612914 | 8_3:-36846061 | Msa1287120:CDS |
| CGAAGAGGACGTAACTACCA+TGG | 0.633501 | 8_3:-36846002 | Msa1287120:CDS |
| AGGCTGATAACTGCAGAAGG+TGG | 0.634288 | 8_3:-36846058 | Msa1287120:CDS |
| TTGACCCGACAATATTGGGG+TGG | 0.648860 | 8_3:+36845897 | None:intergenic |
| ACGTGATTTAAGACTCTGTG+TGG | 0.649018 | 8_3:+36845941 | None:intergenic |
| AGATTGACCCGACAATATTG+GGG | 0.649456 | 8_3:+36845894 | None:intergenic |
| CATATTCGCAAAATTCTACA+CGG | 0.662906 | 8_3:-36845252 | Msa1287120:CDS |
| GAAGCTATCTGACTTTAGTG+CGG | 0.690601 | 8_3:-36845172 | Msa1287120:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAGCACATATAAAGATTAT+AGG | - | chr8_3:36845310-36845329 | Msa1287120:intron | 20.0% |
| !!! | TTTGGAATATTTAAAAACTC+CGG | + | chr8_3:36845799-36845818 | None:intergenic | 20.0% |
| !!! | AGTTTTTAAATATTCCAAAC+TGG | - | chr8_3:36845800-36845819 | Msa1287120:intron | 20.0% |
| !! | AATAGAAACGCAATAAATTA+TGG | + | chr8_3:36845920-36845939 | None:intergenic | 20.0% |
| !! | TATATATTAGATGCAAACAA+AGG | - | chr8_3:36846041-36846060 | Msa1287120:CDS | 20.0% |
| !!! | TCTGAAATCTAATAATATTC+TGG | - | chr8_3:36846162-36846181 | Msa1287120:intron | 20.0% |
| !! | ATAGCACATATAAAGATTAT+AGG | - | chr8_3:36845310-36845329 | Msa1287120:intron | 20.0% |
| !!! | TTTGGAATATTTAAAAACTC+CGG | + | chr8_3:36845799-36845818 | None:intergenic | 20.0% |
| !!! | AGTTTTTAAATATTCCAAAC+TGG | - | chr8_3:36845800-36845819 | Msa1287120:intron | 20.0% |
| !! | AATAGAAACGCAATAAATTA+TGG | + | chr8_3:36845920-36845939 | None:intergenic | 20.0% |
| !! | TATATATTAGATGCAAACAA+AGG | - | chr8_3:36846041-36846060 | Msa1287120:CDS | 20.0% |
| !!! | TCTGAAATCTAATAATATTC+TGG | - | chr8_3:36846162-36846181 | Msa1287120:intron | 20.0% |
| ! | AATTCCTGAATGATGAAATT+TGG | + | chr8_3:36845157-36845176 | None:intergenic | 25.0% |
| ! | CAAAATCAATAAATGTGACA+AGG | + | chr8_3:36845598-36845617 | None:intergenic | 25.0% |
| ! | AATATTTAAAAACTCCGGAT+CGG | + | chr8_3:36845794-36845813 | None:intergenic | 25.0% |
| !!! | TGACTTATTTTTTTCCAGTT+TGG | + | chr8_3:36845817-36845836 | None:intergenic | 25.0% |
| !!! | TATCTTTGTTTTCAACATCA+TGG | - | chr8_3:36845892-36845911 | Msa1287120:intron | 25.0% |
| ! | AATTCCTGAATGATGAAATT+TGG | + | chr8_3:36845157-36845176 | None:intergenic | 25.0% |
| ! | CAAAATCAATAAATGTGACA+AGG | + | chr8_3:36845598-36845617 | None:intergenic | 25.0% |
| ! | AATATTTAAAAACTCCGGAT+CGG | + | chr8_3:36845794-36845813 | None:intergenic | 25.0% |
| !!! | TGACTTATTTTTTTCCAGTT+TGG | + | chr8_3:36845817-36845836 | None:intergenic | 25.0% |
| !!! | TATCTTTGTTTTCAACATCA+TGG | - | chr8_3:36845892-36845911 | Msa1287120:intron | 25.0% |
| AGTTCCAAATTTCATCATTC+AGG | - | chr8_3:36845150-36845169 | Msa1287120:CDS | 30.0% | |
| AGAACAGAGAATAAGTCTAT+AGG | + | chr8_3:36845222-36845241 | None:intergenic | 30.0% | |
| TATCTTGTAGTGCTAAGAAA+AGG | - | chr8_3:36845943-36845962 | Msa1287120:CDS | 30.0% | |
| CATATTCGCAAAATTCTACA+CGG | - | chr8_3:36846136-36846155 | Msa1287120:intron | 30.0% | |
| AGTTCCAAATTTCATCATTC+AGG | - | chr8_3:36845150-36845169 | Msa1287120:CDS | 30.0% | |
| AGAACAGAGAATAAGTCTAT+AGG | + | chr8_3:36845222-36845241 | None:intergenic | 30.0% | |
| TATCTTGTAGTGCTAAGAAA+AGG | - | chr8_3:36845943-36845962 | Msa1287120:CDS | 30.0% | |
| CATATTCGCAAAATTCTACA+CGG | - | chr8_3:36846136-36846155 | Msa1287120:intron | 30.0% | |
| !! | TTCTGGAATGGTTAAAACCA+TGG | + | chr8_3:36845406-36845425 | None:intergenic | 35.0% |
| !!! | GTTTTTCTGGTTTTCTGGAA+TGG | + | chr8_3:36845418-36845437 | None:intergenic | 35.0% |
| !!! | CCATTGTTTTTCTGGTTTTC+TGG | + | chr8_3:36845423-36845442 | None:intergenic | 35.0% |
| CCAGAAAACCAGAAAAACAA+TGG | - | chr8_3:36845420-36845439 | Msa1287120:intron | 35.0% | |
| !! | GTGGAAATCCATTGTTTTTC+TGG | + | chr8_3:36845431-36845450 | None:intergenic | 35.0% |
| AAGATTGACCCGACAATATT+GGG | + | chr8_3:36845498-36845517 | None:intergenic | 35.0% | |
| AAAGATTGACCCGACAATAT+TGG | + | chr8_3:36845499-36845518 | None:intergenic | 35.0% | |
| AGAGATGAAGGAAGAAAAGA+AGG | + | chr8_3:36845524-36845543 | None:intergenic | 35.0% | |
| CTGTAACAGAAAAGAGATGA+AGG | + | chr8_3:36845536-36845555 | None:intergenic | 35.0% | |
| TAAAAAATACCTCACCGATC+CGG | - | chr8_3:36845777-36845796 | Msa1287120:intron | 35.0% | |
| AGAAAAATCTGCAAGGACAA+GGG | + | chr8_3:36846085-36846104 | None:intergenic | 35.0% | |
| ! | CGTGTAGAATTTTGCGAATA+TGG | + | chr8_3:36846138-36846157 | None:intergenic | 35.0% |
| TTAATAGAGTAGGGTGAAAG+AGG | + | chr8_3:36846259-36846278 | None:intergenic | 35.0% | |
| !! | TTCTGGAATGGTTAAAACCA+TGG | + | chr8_3:36845406-36845425 | None:intergenic | 35.0% |
| !!! | GTTTTTCTGGTTTTCTGGAA+TGG | + | chr8_3:36845418-36845437 | None:intergenic | 35.0% |
| !!! | CCATTGTTTTTCTGGTTTTC+TGG | + | chr8_3:36845423-36845442 | None:intergenic | 35.0% |
| CCAGAAAACCAGAAAAACAA+TGG | - | chr8_3:36845420-36845439 | Msa1287120:intron | 35.0% | |
| !! | GTGGAAATCCATTGTTTTTC+TGG | + | chr8_3:36845431-36845450 | None:intergenic | 35.0% |
| AAGATTGACCCGACAATATT+GGG | + | chr8_3:36845498-36845517 | None:intergenic | 35.0% | |
| AAAGATTGACCCGACAATAT+TGG | + | chr8_3:36845499-36845518 | None:intergenic | 35.0% | |
| AGAGATGAAGGAAGAAAAGA+AGG | + | chr8_3:36845524-36845543 | None:intergenic | 35.0% | |
| CTGTAACAGAAAAGAGATGA+AGG | + | chr8_3:36845536-36845555 | None:intergenic | 35.0% | |
| TAAAAAATACCTCACCGATC+CGG | - | chr8_3:36845777-36845796 | Msa1287120:intron | 35.0% | |
| AGAAAAATCTGCAAGGACAA+GGG | + | chr8_3:36846085-36846104 | None:intergenic | 35.0% | |
| ! | CGTGTAGAATTTTGCGAATA+TGG | + | chr8_3:36846138-36846157 | None:intergenic | 35.0% |
| TTAATAGAGTAGGGTGAAAG+AGG | + | chr8_3:36846259-36846278 | None:intergenic | 35.0% | |
| TATAGGCTGATAACTGCAGA+AGG | - | chr8_3:36845327-36845346 | Msa1287120:intron | 40.0% | |
| ACGTCCTCTTCGCTAAAAAT+CGG | + | chr8_3:36845378-36845397 | None:intergenic | 40.0% | |
| ! | ACGTGATTTAAGACTCTGTG+TGG | + | chr8_3:36845450-36845469 | None:intergenic | 40.0% |
| TTGAACCACCCCAATATTGT+CGG | - | chr8_3:36845486-36845505 | Msa1287120:intron | 40.0% | |
| AGATTGACCCGACAATATTG+GGG | + | chr8_3:36845497-36845516 | None:intergenic | 40.0% | |
| ATTCAGATTGCAGACAGTGA+TGG | - | chr8_3:36845705-36845724 | Msa1287120:intron | 40.0% | |
| GAAAAATCTGCAAGGACAAG+GGG | + | chr8_3:36846084-36846103 | None:intergenic | 40.0% | |
| CAGAAAAATCTGCAAGGACA+AGG | + | chr8_3:36846086-36846105 | None:intergenic | 40.0% | |
| GAAGCTATCTGACTTTAGTG+CGG | - | chr8_3:36846216-36846235 | Msa1287120:intron | 40.0% | |
| TATAGGCTGATAACTGCAGA+AGG | - | chr8_3:36845327-36845346 | Msa1287120:intron | 40.0% | |
| ACGTCCTCTTCGCTAAAAAT+CGG | + | chr8_3:36845378-36845397 | None:intergenic | 40.0% | |
| ! | ACGTGATTTAAGACTCTGTG+TGG | + | chr8_3:36845450-36845469 | None:intergenic | 40.0% |
| TTGAACCACCCCAATATTGT+CGG | - | chr8_3:36845486-36845505 | Msa1287120:intron | 40.0% | |
| AGATTGACCCGACAATATTG+GGG | + | chr8_3:36845497-36845516 | None:intergenic | 40.0% | |
| ATTCAGATTGCAGACAGTGA+TGG | - | chr8_3:36845705-36845724 | Msa1287120:intron | 40.0% | |
| GAAAAATCTGCAAGGACAAG+GGG | + | chr8_3:36846084-36846103 | None:intergenic | 40.0% | |
| CAGAAAAATCTGCAAGGACA+AGG | + | chr8_3:36846086-36846105 | None:intergenic | 40.0% | |
| GAAGCTATCTGACTTTAGTG+CGG | - | chr8_3:36846216-36846235 | Msa1287120:intron | 40.0% | |
| TGATAACTGCAGAAGGTGGA+AGG | - | chr8_3:36845334-36845353 | Msa1287120:intron | 45.0% | |
| !!! | CAAGCCGATTTTTAGCGAAG+AGG | - | chr8_3:36845371-36845390 | Msa1287120:intron | 45.0% |
| TGAACCACCCCAATATTGTC+GGG | - | chr8_3:36845487-36845506 | Msa1287120:intron | 45.0% | |
| !! | GCAGACAGTGATGGATACTA+AGG | - | chr8_3:36845714-36845733 | Msa1287120:intron | 45.0% |
| TTAAAAACTCCGGATCGGTG+AGG | + | chr8_3:36845789-36845808 | None:intergenic | 45.0% | |
| TTCGCGCAGAAAAATCTGCA+AGG | + | chr8_3:36846092-36846111 | None:intergenic | 45.0% | |
| ATAGAGTAGGGTGAAAGAGG+AGG | + | chr8_3:36846256-36846275 | None:intergenic | 45.0% | |
| TGATAACTGCAGAAGGTGGA+AGG | - | chr8_3:36845334-36845353 | Msa1287120:intron | 45.0% | |
| !!! | CAAGCCGATTTTTAGCGAAG+AGG | - | chr8_3:36845371-36845390 | Msa1287120:intron | 45.0% |
| TGAACCACCCCAATATTGTC+GGG | - | chr8_3:36845487-36845506 | Msa1287120:intron | 45.0% | |
| !! | GCAGACAGTGATGGATACTA+AGG | - | chr8_3:36845714-36845733 | Msa1287120:intron | 45.0% |
| TTAAAAACTCCGGATCGGTG+AGG | + | chr8_3:36845789-36845808 | None:intergenic | 45.0% | |
| TTCGCGCAGAAAAATCTGCA+AGG | + | chr8_3:36846092-36846111 | None:intergenic | 45.0% | |
| ATAGAGTAGGGTGAAAGAGG+AGG | + | chr8_3:36846256-36846275 | None:intergenic | 45.0% | |
| AGGCTGATAACTGCAGAAGG+TGG | - | chr8_3:36845330-36845349 | Msa1287120:intron | 50.0% | |
| CGAAGAGGACGTAACTACCA+TGG | - | chr8_3:36845386-36845405 | Msa1287120:intron | 50.0% | |
| TTGACCCGACAATATTGGGG+TGG | + | chr8_3:36845494-36845513 | None:intergenic | 50.0% | |
| CTGCAAGGACAAGGGGAAAA+TGG | + | chr8_3:36846077-36846096 | None:intergenic | 50.0% | |
| AGGCTGATAACTGCAGAAGG+TGG | - | chr8_3:36845330-36845349 | Msa1287120:intron | 50.0% | |
| CGAAGAGGACGTAACTACCA+TGG | - | chr8_3:36845386-36845405 | Msa1287120:intron | 50.0% | |
| TTGACCCGACAATATTGGGG+TGG | + | chr8_3:36845494-36845513 | None:intergenic | 50.0% | |
| CTGCAAGGACAAGGGGAAAA+TGG | + | chr8_3:36846077-36846096 | None:intergenic | 50.0% | |
| TTTCTGCGCGAAGCTCTCTC+TGG | - | chr8_3:36846100-36846119 | Msa1287120:CDS | 55.0% | |
| TTTCTGCGCGAAGCTCTCTC+TGG | - | chr8_3:36846100-36846119 | Msa1287120:CDS | 55.0% | |
| GCGCGAAGCTCTCTCTGGAT+TGG | - | chr8_3:36846105-36846124 | Msa1287120:CDS | 60.0% | |
| GCGCGAAGCTCTCTCTGGAT+TGG | - | chr8_3:36846105-36846124 | Msa1287120:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 36845125 | 36846285 | 36845125 | ID=Msa1287120;Name=Msa1287120 |
| chr8_3 | mRNA | 36845125 | 36846285 | 36845125 | ID=Msa1287120-mRNA-1;Parent=Msa1287120;Name=Msa1287120-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|0|0|0.75|0.33|0.5|4|0|157 |
| chr8_3 | exon | 36846275 | 36846285 | 36846275 | ID=Msa1287120-mRNA-1:exon:10663;Parent=Msa1287120-mRNA-1 |
| chr8_3 | exon | 36845902 | 36846135 | 36845902 | ID=Msa1287120-mRNA-1:exon:10662;Parent=Msa1287120-mRNA-1 |
| chr8_3 | exon | 36845660 | 36845699 | 36845660 | ID=Msa1287120-mRNA-1:exon:10661;Parent=Msa1287120-mRNA-1 |
| chr8_3 | exon | 36845125 | 36845313 | 36845125 | ID=Msa1287120-mRNA-1:exon:10660;Parent=Msa1287120-mRNA-1 |
| chr8_3 | CDS | 36846275 | 36846285 | 36846275 | ID=Msa1287120-mRNA-1:cds;Parent=Msa1287120-mRNA-1 |
| chr8_3 | CDS | 36845902 | 36846135 | 36845902 | ID=Msa1287120-mRNA-1:cds;Parent=Msa1287120-mRNA-1 |
| chr8_3 | CDS | 36845660 | 36845699 | 36845660 | ID=Msa1287120-mRNA-1:cds;Parent=Msa1287120-mRNA-1 |
| chr8_3 | CDS | 36845125 | 36845313 | 36845125 | ID=Msa1287120-mRNA-1:cds;Parent=Msa1287120-mRNA-1 |
| Gene Sequence |
| Protein sequence |
