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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0189520 | AES63364.1 | 92.063 | 63 | 5 | 0 | 25 | 87 | 11 | 73 | 5.12e-34 | 121 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0003640 | Msa0189520 | 0.817863 | 2.644138e-52 | -8.615850e-47 |
| Msa0004840 | Msa0189520 | 0.827884 | 1.222622e-54 | -8.615850e-47 |
| Msa0006040 | Msa0189520 | 0.831368 | 1.736545e-55 | -8.615850e-47 |
| Msa0007440 | Msa0189520 | 0.827766 | 1.305237e-54 | -8.615850e-47 |
| Msa0010490 | Msa0189520 | 0.835716 | 1.427494e-56 | -8.615850e-47 |
| Msa0010500 | Msa0189520 | 0.831812 | 1.349881e-55 | -8.615850e-47 |
| Msa0011960 | Msa0189520 | 0.868961 | 4.422195e-66 | -8.615850e-47 |
| Msa0015460 | Msa0189520 | 0.820972 | 5.170761e-53 | -8.615850e-47 |
| Msa0015480 | Msa0189520 | 0.806008 | 1.013232e-49 | -8.615850e-47 |
| Msa0015930 | Msa0189520 | 0.803661 | 3.134172e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0189520 | MtrunA17_Chr2g0278531 | 92.063 | 63 | 5 | 0 | 25 | 87 | 11 | 73 | 4.71e-38 | 121 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0189520 | AT1G25275.3 | 50.000 | 70 | 31 | 1 | 20 | 85 | 2 | 71 | 1.30e-17 | 70.9 |
| Msa0189520 | AT1G25275.1 | 50.000 | 70 | 31 | 1 | 20 | 85 | 2 | 71 | 1.59e-17 | 70.1 |
| Msa0189520 | AT1G25275.2 | 48.571 | 70 | 32 | 1 | 20 | 85 | 2 | 71 | 1.43e-16 | 67.8 |
Find 22 sgRNAs with CRISPR-Local
Find 105 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAACCAAGTTTAATTAGA+AGG | 0.335558 | 2_1:+4904081 | None:intergenic |
| ACAACCAGCAAACATTCAAT+AGG | 0.448858 | 2_1:+4904114 | None:intergenic |
| AGGCAGTTTGGCAACCATCA+AGG | 0.564306 | 2_1:+4904771 | None:intergenic |
| ATGCAGCAAGGCTTACGGCA+AGG | 0.642528 | 2_1:-4904559 | Msa0189520:intron |
| ATGTAGCAAGTAATTGCTTA+AGG | 0.470851 | 2_1:-4903993 | Msa0189520:three_prime_UTR |
| ATTGTGATAGCTAGCAGAAT+TGG | 0.459069 | 2_1:+4903960 | None:intergenic |
| CGCAAGTGCTCGATTAGATG+CGG | 0.643345 | 2_1:-4904530 | Msa0189520:CDS |
| CTAACAGTCTCTTTGAACGC+AGG | 0.676017 | 2_1:+4904751 | None:intergenic |
| CTCTTTGAACGCAGGCAGTT+TGG | 0.316423 | 2_1:+4904759 | None:intergenic |
| GAAGATGATGAAGAAGACGA+CGG | 0.724386 | 2_1:-4904864 | Msa0189520:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTTGGGTAATGTTAATTACC+TGG | + | chr2_1:4904436-4904455 | None:intergenic | 30.0% | |
| ATGTAGCAAGTAATTGCTTA+AGG | - | chr2_1:4904946-4904965 | Msa0189520:intron | 30.0% | |
| TTTGGGTAATGTTAATTACC+TGG | + | chr2_1:4904436-4904455 | None:intergenic | 30.0% | |
| ATGTAGCAAGTAATTGCTTA+AGG | - | chr2_1:4904946-4904965 | Msa0189520:intron | 30.0% | |
| TAGGTGTGCATTTATGACTT+TGG | - | chr2_1:4903914-4903933 | Msa0189520:three_prime_UTR | 35.0% | |
| CTTGAATGATCGATAACAAC+AGG | - | chr2_1:4904552-4904571 | Msa0189520:CDS | 35.0% | |
| ATAATATATTGTCTGAGCCC+AGG | + | chr2_1:4904637-4904656 | None:intergenic | 35.0% | |
| ACAACCAGCAAACATTCAAT+AGG | + | chr2_1:4904828-4904847 | None:intergenic | 35.0% | |
| ATTGTGATAGCTAGCAGAAT+TGG | + | chr2_1:4904982-4905001 | None:intergenic | 35.0% | |
| ATAAATGCACACCTATCCAT+AGG | + | chr2_1:4903909-4903928 | None:intergenic | 35.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 4903909 | 4905052 | 4903909 | ID=Msa0189520;Name=Msa0189520 |
| chr2_1 | mRNA | 4903909 | 4905052 | 4903909 | ID=Msa0189520-mRNA-1;Parent=Msa0189520;Name=Msa0189520-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|0.66|0.5|1|0.33|0.5|4|327|87 |
| chr2_1 | exon | 4903909 | 4904264 | 4903909 | ID=Msa0189520-mRNA-1:exon:2214;Parent=Msa0189520-mRNA-1 |
| chr2_1 | exon | 4904525 | 4904575 | 4904525 | ID=Msa0189520-mRNA-1:exon:2213;Parent=Msa0189520-mRNA-1 |
| chr2_1 | exon | 4904756 | 4904931 | 4904756 | ID=Msa0189520-mRNA-1:exon:2212;Parent=Msa0189520-mRNA-1 |
| chr2_1 | exon | 4905045 | 4905052 | 4905045 | ID=Msa0189520-mRNA-1:exon:2211;Parent=Msa0189520-mRNA-1 |
| chr2_1 | CDS | 4905045 | 4905052 | 4905045 | ID=Msa0189520-mRNA-1:cds;Parent=Msa0189520-mRNA-1 |
| chr2_1 | CDS | 4904756 | 4904931 | 4904756 | ID=Msa0189520-mRNA-1:cds;Parent=Msa0189520-mRNA-1 |
| chr2_1 | CDS | 4904525 | 4904575 | 4904525 | ID=Msa0189520-mRNA-1:cds;Parent=Msa0189520-mRNA-1 |
| chr2_1 | CDS | 4904236 | 4904264 | 4904236 | ID=Msa0189520-mRNA-1:cds;Parent=Msa0189520-mRNA-1 |
| chr2_1 | three_prime_UTR | 4903909 | 4904235 | 4903909 | ID=Msa0189520-mRNA-1:three_prime_utr;Parent=Msa0189520-mRNA-1 |
| Gene Sequence |
>Msa0189520 ATGGATAGAGAATCTACCAAACGATCAAAGAGAAAAGAGAAAGTAAAGTTAGTGAAGATGATGAAGAAGACGACGGTGGTTGCTATGATGCTTTTATTTGTGATATTTTCTCAAATGGATAGCGTTGTTCCTGATGCTTCTGATTGCCTTGATGGTTGCCAAACTGCCTGCGTTCAAAGAGACTCAAGGCTTACGGCAAGGTGTGAGCGCAAGTGCTCGATTAGATGCGGTCCAGATTCTATGGTGGAGAAGGGCATGGATTGA |
| Protein sequence |
>Msa0189520 MDRESTKRSKRKEKVKLVKMMKKTTVVAMMLLFVIFSQMDSVVPDASDCLDGCQTACVQRDSRLTARCERKCSIRCGPDSMVEKGMD* |
