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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1145460 | XP_003606120.1 | 97.143 | 70 | 2 | 0 | 4 | 73 | 1 | 70 | 6.38e-43 | 143 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1145460 | G7JIE8 | 97.143 | 70 | 2 | 0 | 4 | 73 | 1 | 70 | 3.05e-43 | 143 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0167700 | Msa1145460 | 0.810584 | 1.071937e-50 | -8.615850e-47 |
| Msa1145460 | Msa1375210 | 0.819259 | 1.275693e-52 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1145460 | MtrunA17_Chr4g0026341 | 97.143 | 70 | 2 | 0 | 4 | 73 | 1 | 70 | 5.87e-47 | 143 |
| Msa1145460 | MtrunA17_Chr4g0056721 | 94.286 | 70 | 4 | 0 | 4 | 73 | 1 | 70 | 4.44e-45 | 138 |
| Msa1145460 | MtrunA17_Chr2g0321091 | 76.923 | 65 | 15 | 0 | 9 | 73 | 5 | 69 | 2.28e-33 | 109 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1145460 | AT4G21105.1 | 75.758 | 66 | 16 | 0 | 8 | 73 | 3 | 68 | 6.96e-34 | 110 |
| Msa1145460 | AT4G21105.3 | 75.758 | 66 | 16 | 0 | 8 | 73 | 3 | 68 | 6.96e-34 | 110 |
| Msa1145460 | AT4G21105.2 | 70.000 | 40 | 12 | 0 | 8 | 47 | 3 | 42 | 1.10e-15 | 64.3 |
Find 35 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTTATAACTTGAGTTAAAA+TGG | 0.289749 | 7_4:-22292172 | Msa1145460:three_prime_UTR |
| CGAACAGAACCTCCTCATTA+TGG | 0.325538 | 7_4:-22292270 | Msa1145460:three_prime_UTR |
| TATAATATGTCGCATGGAAT+AGG | 0.329548 | 7_4:-22292351 | Msa1145460:CDS |
| TAAACTGTTCCTTCTAGTTA+TGG | 0.355570 | 7_4:-22292074 | Msa1145460:three_prime_UTR |
| AGGGCCCTTTCAAGTGAGTA+TGG | 0.384581 | 7_4:+22292563 | None:intergenic |
| AACAGACGTAATCTTATCAT+AGG | 0.410999 | 7_4:+22292543 | None:intergenic |
| AATCAAGAACCATAACTAGA+AGG | 0.459313 | 7_4:+22292065 | None:intergenic |
| CAGAGTTTGACCACCATTGT+GGG | 0.474697 | 7_4:-22292194 | Msa1145460:three_prime_UTR |
| AGCTTCTCTCGTGGTCTGAA+TGG | 0.478089 | 7_4:+22292622 | None:intergenic |
| TATGCATTTGTTCAGGGACG+AGG | 0.478227 | 7_4:-22292378 | Msa1145460:intron |
| GACTTGACTATTTCTGATGC+AGG | 0.480831 | 7_4:-22292317 | Msa1145460:three_prime_UTR |
| GGTCTGAATGGTGCTTCTGT+TGG | 0.499882 | 7_4:+22292634 | None:intergenic |
| GAGTATGGTTACGCATATGC+TGG | 0.507736 | 7_4:+22292578 | None:intergenic |
| CGTAACCATACTCACTTGAA+AGG | 0.509853 | 7_4:-22292568 | Msa1145460:CDS |
| ACATTTCAACTGTCTCATAG+TGG | 0.524035 | 7_4:-22291988 | Msa1145460:three_prime_UTR |
| TGGTTCTGCCATCCTGCACA+AGG | 0.530946 | 7_4:+22292654 | None:intergenic |
| CAATTGATGACTCAAACTAC+TGG | 0.535565 | 7_4:-22292128 | Msa1145460:three_prime_UTR |
| GTCGCATGGAATAGGAAAGA+AGG | 0.540132 | 7_4:-22292343 | Msa1145460:CDS |
| CATAATGAGGAGGTTCTGTT+CGG | 0.543796 | 7_4:+22292271 | None:intergenic |
| GATAATTGTTGGCCTTGTGC+AGG | 0.559216 | 7_4:-22292666 | None:intergenic |
| GCAGAGTTTGACCACCATTG+TGG | 0.565633 | 7_4:-22292195 | Msa1145460:three_prime_UTR |
| GGGATCTATAATATGTCGCA+TGG | 0.571320 | 7_4:-22292357 | Msa1145460:CDS |
| ACAGACGTAATCTTATCATA+GGG | 0.596059 | 7_4:+22292544 | None:intergenic |
| GTAACCATACTCACTTGAAA+GGG | 0.598233 | 7_4:-22292567 | Msa1145460:CDS |
| ATGCATTTGTTCAGGGACGA+GGG | 0.613696 | 7_4:-22292377 | Msa1145460:intron |
| ATTGTTGGCCTTGTGCAGGA+TGG | 0.618822 | 7_4:-22292662 | None:intergenic |
| TTTCAACTGTCTCATAGTGG+TGG | 0.619470 | 7_4:-22291985 | None:intergenic |
| GAAGCTGCAGTCAAAGCAAG+TGG | 0.624309 | 7_4:+22292514 | None:intergenic |
| AAAATCTCGAGTCCATAATG+AGG | 0.630429 | 7_4:+22292258 | None:intergenic |
| ATCTCGAGTCCATAATGAGG+AGG | 0.632319 | 7_4:+22292261 | None:intergenic |
| CTCAAGTTATAAACCCACAA+TGG | 0.646319 | 7_4:+22292181 | None:intergenic |
| TTCTCAATAAGCTTCTCTCG+TGG | 0.647709 | 7_4:+22292613 | None:intergenic |
| TATGGTTCTTGATTTGCATG+CGG | 0.672326 | 7_4:-22292056 | Msa1145460:three_prime_UTR |
| TTGACTATTTCTGATGCAGG+AGG | 0.679686 | 7_4:-22292314 | Msa1145460:three_prime_UTR |
| AAGTTATAAACCCACAATGG+TGG | 0.687611 | 7_4:+22292184 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTATTAAGAGAAAAGAA+TGG | + | chr7_4:22292414-22292433 | None:intergenic | 15.0% |
| !!! | AAGTATTGTTTATAAGGATA+TGG | + | chr7_4:22292240-22292259 | None:intergenic | 20.0% |
| !!! | TGCATAAAGTATTGTTTATA+AGG | + | chr7_4:22292246-22292265 | None:intergenic | 20.0% |
| !! | GTTTATAACTTGAGTTAAAA+TGG | - | chr7_4:22292466-22292485 | Msa1145460:intron | 20.0% |
| !!! | AAACTACTGGTTTTTTATTT+GGG | - | chr7_4:22292523-22292542 | Msa1145460:CDS | 20.0% |
| ! | AATACTTTATGCATTTGTTC+AGG | - | chr7_4:22292253-22292272 | Msa1145460:three_prime_UTR | 25.0% |
| ! | ATACTTTATGCATTTGTTCA+GGG | - | chr7_4:22292254-22292273 | Msa1145460:three_prime_UTR | 25.0% |
| !!! | CAAACTACTGGTTTTTTATT+TGG | - | chr7_4:22292522-22292541 | Msa1145460:CDS | 25.0% |
| ACAGACGTAATCTTATCATA+GGG | + | chr7_4:22292097-22292116 | None:intergenic | 30.0% | |
| AACAGACGTAATCTTATCAT+AGG | + | chr7_4:22292098-22292117 | None:intergenic | 30.0% | |
| TATGGCTATAAAGAAACAAG+TGG | + | chr7_4:22292222-22292241 | None:intergenic | 30.0% | |
| TATAATATGTCGCATGGAAT+AGG | - | chr7_4:22292287-22292306 | Msa1145460:three_prime_UTR | 30.0% | |
| ! | TAAACTGTTCCTTCTAGTTA+TGG | - | chr7_4:22292564-22292583 | Msa1145460:CDS | 30.0% |
| AATCAAGAACCATAACTAGA+AGG | + | chr7_4:22292576-22292595 | None:intergenic | 30.0% | |
| GTAACCATACTCACTTGAAA+GGG | - | chr7_4:22292071-22292090 | Msa1145460:three_prime_UTR | 35.0% | |
| AAAATCTCGAGTCCATAATG+AGG | + | chr7_4:22292383-22292402 | None:intergenic | 35.0% | |
| AAGTTATAAACCCACAATGG+TGG | + | chr7_4:22292457-22292476 | None:intergenic | 35.0% | |
| CTCAAGTTATAAACCCACAA+TGG | + | chr7_4:22292460-22292479 | None:intergenic | 35.0% | |
| ! | CAATTGATGACTCAAACTAC+TGG | - | chr7_4:22292510-22292529 | Msa1145460:CDS | 35.0% |
| !! | TATGGTTCTTGATTTGCATG+CGG | - | chr7_4:22292582-22292601 | Msa1145460:CDS | 35.0% |
| ACATTTCAACTGTCTCATAG+TGG | - | chr7_4:22292650-22292669 | Msa1145460:CDS | 35.0% | |
| TTCTCAATAAGCTTCTCTCG+TGG | + | chr7_4:22292028-22292047 | None:intergenic | 40.0% | |
| CGTAACCATACTCACTTGAA+AGG | - | chr7_4:22292070-22292089 | Msa1145460:three_prime_UTR | 40.0% | |
| GGGATCTATAATATGTCGCA+TGG | - | chr7_4:22292281-22292300 | Msa1145460:three_prime_UTR | 40.0% | |
| !! | GACTTGACTATTTCTGATGC+AGG | - | chr7_4:22292321-22292340 | Msa1145460:exon | 40.0% |
| !! | TTGACTATTTCTGATGCAGG+AGG | - | chr7_4:22292324-22292343 | Msa1145460:exon | 40.0% |
| CATAATGAGGAGGTTCTGTT+CGG | + | chr7_4:22292370-22292389 | None:intergenic | 40.0% | |
| !! | TTGGGTCTCTTGCTTGTTTT+TGG | - | chr7_4:22292541-22292560 | Msa1145460:CDS | 40.0% |
| GAGTATGGTTACGCATATGC+TGG | + | chr7_4:22292063-22292082 | None:intergenic | 45.0% | |
| TATGCATTTGTTCAGGGACG+AGG | - | chr7_4:22292260-22292279 | Msa1145460:three_prime_UTR | 45.0% | |
| ATGCATTTGTTCAGGGACGA+GGG | - | chr7_4:22292261-22292280 | Msa1145460:three_prime_UTR | 45.0% | |
| GTCGCATGGAATAGGAAAGA+AGG | - | chr7_4:22292295-22292314 | Msa1145460:three_prime_UTR | 45.0% | |
| CGAACAGAACCTCCTCATTA+TGG | - | chr7_4:22292368-22292387 | Msa1145460:intron | 45.0% | |
| ATCTCGAGTCCATAATGAGG+AGG | + | chr7_4:22292380-22292399 | None:intergenic | 45.0% | |
| CAGAGTTTGACCACCATTGT+GGG | - | chr7_4:22292444-22292463 | Msa1145460:intron | 45.0% | |
| GGTCTGAATGGTGCTTCTGT+TGG | + | chr7_4:22292007-22292026 | None:intergenic | 50.0% | |
| AGCTTCTCTCGTGGTCTGAA+TGG | + | chr7_4:22292019-22292038 | None:intergenic | 50.0% | |
| ! | AGGGCCCTTTCAAGTGAGTA+TGG | + | chr7_4:22292078-22292097 | None:intergenic | 50.0% |
| GAAGCTGCAGTCAAAGCAAG+TGG | + | chr7_4:22292127-22292146 | None:intergenic | 50.0% | |
| GCAGAGTTTGACCACCATTG+TGG | - | chr7_4:22292443-22292462 | Msa1145460:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 22291986 | 22292674 | 22291986 | ID=Msa1145460;Name=Msa1145460 |
| chr7_4 | mRNA | 22291986 | 22292674 | 22291986 | ID=Msa1145460-mRNA-1;Parent=Msa1145460;Name=Msa1145460-mRNA-1;_AED=0.10;_eAED=0.10;_QI=0|1|0.5|1|1|1|2|352|73 |
| chr7_4 | exon | 22291986 | 22292385 | 22291986 | ID=Msa1145460-mRNA-1:exon:5547;Parent=Msa1145460-mRNA-1 |
| chr7_4 | exon | 22292501 | 22292674 | 22292501 | ID=Msa1145460-mRNA-1:exon:5546;Parent=Msa1145460-mRNA-1 |
| chr7_4 | CDS | 22292501 | 22292674 | 22292501 | ID=Msa1145460-mRNA-1:cds;Parent=Msa1145460-mRNA-1 |
| chr7_4 | CDS | 22292338 | 22292385 | 22292338 | ID=Msa1145460-mRNA-1:cds;Parent=Msa1145460-mRNA-1 |
| chr7_4 | three_prime_UTR | 22291986 | 22292337 | 22291986 | ID=Msa1145460-mRNA-1:three_prime_utr;Parent=Msa1145460-mRNA-1 |
| Gene Sequence |
| Protein sequence |
