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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0261550 | XP_013465029.1 | 97.701 | 87 | 2 | 0 | 1 | 87 | 1 | 87 | 5.78e-57 | 180 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0261550 | A0A072VAJ9 | 97.701 | 87 | 2 | 0 | 1 | 87 | 1 | 87 | 2.76e-57 | 180 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001450 | Msa0261550 | 0.826678 | 2.378243e-54 | -8.615850e-47 |
| Msa0015390 | Msa0261550 | 0.809063 | 2.277425e-50 | -8.615850e-47 |
| Msa0018070 | Msa0261550 | 0.810431 | 1.156441e-50 | -8.615850e-47 |
| Msa0020390 | Msa0261550 | 0.829026 | 6.481056e-55 | -8.615850e-47 |
| Msa0020410 | Msa0261550 | 0.807042 | 6.132387e-50 | -8.615850e-47 |
| Msa0023000 | Msa0261550 | 0.827193 | 1.790616e-54 | -8.615850e-47 |
| Msa0027260 | Msa0261550 | 0.813500 | 2.480019e-51 | -8.615850e-47 |
| Msa0033110 | Msa0261550 | 0.818392 | 2.007395e-52 | -8.615850e-47 |
| Msa0033260 | Msa0261550 | 0.814805 | 1.277795e-51 | -8.615850e-47 |
| Msa0035150 | Msa0261550 | 0.808645 | 2.798019e-50 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0261550 | MtrunA17_Chr2g0323761 | 97.701 | 87 | 2 | 0 | 1 | 87 | 1 | 87 | 5.32e-61 | 180 |
| Msa0261550 | MtrunA17_Chr2g0323741 | 81.111 | 90 | 14 | 2 | 1 | 87 | 1 | 90 | 2.44e-48 | 148 |
| Msa0261550 | MtrunA17_Chr2g0323751 | 75.824 | 91 | 18 | 2 | 1 | 87 | 1 | 91 | 9.83e-46 | 141 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0261550 | AT4G28240.1 | 46.739 | 92 | 38 | 3 | 1 | 87 | 1 | 86 | 3.70e-20 | 77.4 |
Find 33 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACTTTCCGGAGAGAATCAT+CGG | 0.554058 | 2_2:-60006369 | None:intergenic |
| AAGTTATGTACATGAATTGC+TGG | 0.397828 | 2_2:+60006387 | Msa0261550:CDS |
| AATTCATGTACATAACTTTC+CGG | 0.379119 | 2_2:-60006382 | None:intergenic |
| ACTTGTGGCCTGGATCGGTG+TGG | 0.680459 | 2_2:-60006211 | None:intergenic |
| AGAAGAGACGAGTTCGGTTT+TGG | 0.305492 | 2_2:-60006259 | None:intergenic |
| AGTTATGTACATGAATTGCT+GGG | 0.535583 | 2_2:+60006388 | Msa0261550:CDS |
| ATCGGAGGTGAGTTCTGAGG+CGG | 0.654083 | 2_2:+60006328 | Msa0261550:CDS |
| CAACGACGCCGGACAACGGC+CGG | 0.455353 | 2_2:-60006304 | None:intergenic |
| CACAAGTGCAAAACAGCCGT+TGG | 0.609626 | 2_2:+60006227 | Msa0261550:CDS |
| CACCTCCGATACAACGACGC+CGG | 0.661000 | 2_2:-60006315 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAGTTATGTACATGAATTGC+TGG | + | chr2_2:60006387-60006406 | Msa0261550:CDS | 30.0% | |
| AGTTATGTACATGAATTGCT+GGG | + | chr2_2:60006388-60006407 | Msa0261550:CDS | 30.0% | |
| GTTATGTACATGAATTGCTG+GGG | + | chr2_2:60006389-60006408 | Msa0261550:CDS | 35.0% | |
| TGAGTTACTTGAACCGTGTT+TGG | + | chr2_2:60006159-60006178 | Msa0261550:CDS | 40.0% | |
| TTACTTGAACCGTGTTTGGA+TGG | + | chr2_2:60006163-60006182 | Msa0261550:CDS | 40.0% | |
| AACTTTCCGGAGAGAATCAT+CGG | - | chr2_2:60006372-60006391 | None:intergenic | 40.0% | |
| GAAGAACCGATGATTCTCTC+CGG | + | chr2_2:60006363-60006382 | Msa0261550:CDS | 45.0% | |
| TACATGAATTGCTGGGGTCA+AGG | + | chr2_2:60006395-60006414 | Msa0261550:CDS | 45.0% | |
| CTTGAACCGTGTTTGGATGG+CGG | + | chr2_2:60006166-60006185 | Msa0261550:CDS | 50.0% | |
| TTTGCACTTGTGGCCTGGAT+CGG | - | chr2_2:60006219-60006238 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 60006158 | 60006421 | 60006158 | ID=Msa0261550;Name=Msa0261550 |
| chr2_2 | mRNA | 60006158 | 60006421 | 60006158 | ID=Msa0261550-mRNA-1;Parent=Msa0261550;Name=Msa0261550-mRNA-1;_AED=0.31;_eAED=0.31;_QI=0|-1|0|1|-1|1|1|0|87 |
| chr2_2 | exon | 60006158 | 60006421 | 60006158 | ID=Msa0261550-mRNA-1:exon:18474;Parent=Msa0261550-mRNA-1 |
| chr2_2 | CDS | 60006158 | 60006421 | 60006158 | ID=Msa0261550-mRNA-1:cds;Parent=Msa0261550-mRNA-1 |
| Gene Sequence |
>Msa0261550 ATGAGTTACTTGAACCGTGTTTGGATGGCGGCAACCGTAGCGGTGGCGCAAGGCCACACCGATCCAGGCCACAAGTGCAAAACAGCCGTTGGATCTATTCACCAAAACCGAACTCGTCTCTTCTCTGCCGGAAGTTTATCCGATCTCCGGCCGTTGTCCGGCGTCGTTGTATCGGAGGTGAGTTCTGAGGCGGATGAGAAGTTAAGAAGAACCGATGATTCTCTCCGGAAAGTTATGTACATGAATTGCTGGGGTCAAGGCTGA |
| Protein sequence |
>Msa0261550 MSYLNRVWMAATVAVAQGHTDPGHKCKTAVGSIHQNRTRLFSAGSLSDLRPLSGVVVSEVSSEADEKLRRTDDSLRKVMYMNCWGQG* |
