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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0315240 | XP_039686702.1 | 96.358 | 302 | 11 | 0 | 1 | 302 | 1 | 302 | 0.0 | 605 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0315240 | sp|Q99XR4|GLFT_STRP1 | 26.007 | 273 | 178 | 5 | 9 | 277 | 7 | 259 | 1.18e-22 | 98.6 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000490 | Msa0315240 | -0.809882 | 1.518785e-50 | -8.615850e-47 |
| Msa0001950 | Msa0315240 | 0.803180 | 3.941777e-49 | -8.615850e-47 |
| Msa0002540 | Msa0315240 | 0.807952 | 3.930127e-50 | -8.615850e-47 |
| Msa0011720 | Msa0315240 | 0.836827 | 7.450116e-57 | -8.615850e-47 |
| Msa0012440 | Msa0315240 | 0.826925 | 2.075555e-54 | -8.615850e-47 |
| Msa0024680 | Msa0315240 | 0.828551 | 8.444577e-55 | -8.615850e-47 |
| Msa0027540 | Msa0315240 | 0.820543 | 6.487992e-53 | -8.615850e-47 |
| Msa0028060 | Msa0315240 | 0.802565 | 5.281635e-49 | -8.615850e-47 |
| Msa0030000 | Msa0315240 | 0.823393 | 1.419069e-53 | -8.615850e-47 |
| Msa0030590 | Msa0315240 | 0.813940 | 1.984088e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0315240 | MtrunA17_Chr2g0323831 | 96.358 | 302 | 11 | 0 | 1 | 302 | 1 | 302 | 0.0 | 605 |
| Msa0315240 | MtrunA17_Chr2g0323841 | 48.837 | 301 | 150 | 3 | 3 | 301 | 18 | 316 | 1.12e-97 | 290 |
| Msa0315240 | MtrunA17_Chr2g0323871 | 50.000 | 96 | 47 | 1 | 206 | 301 | 12 | 106 | 2.40e-28 | 105 |
| Msa0315240 | MtrunA17_Chr2g0323861 | 43.077 | 130 | 73 | 1 | 3 | 131 | 4 | 133 | 3.26e-28 | 106 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0315240 | AT2G20830.1 | 59.060 | 298 | 118 | 1 | 1 | 298 | 1 | 294 | 2.82e-127 | 365 |
| Msa0315240 | AT2G20830.4 | 59.060 | 298 | 118 | 1 | 1 | 298 | 1 | 294 | 2.82e-127 | 365 |
| Msa0315240 | AT2G20830.5 | 59.060 | 298 | 118 | 1 | 1 | 298 | 6 | 299 | 3.86e-127 | 365 |
| Msa0315240 | AT2G20830.6 | 59.060 | 298 | 118 | 1 | 1 | 298 | 75 | 368 | 2.10e-126 | 365 |
| Msa0315240 | AT2G20830.3 | 59.060 | 298 | 118 | 1 | 1 | 298 | 45 | 338 | 2.99e-126 | 364 |
| Msa0315240 | AT2G20830.2 | 59.060 | 298 | 118 | 1 | 1 | 298 | 135 | 428 | 7.84e-125 | 363 |
Find 77 sgRNAs with CRISPR-Local
Find 146 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGTTGAAGACAATCCT+AGG | 0.489767 | 2_4:-11461787 | Msa0315240:CDS |
| AAACGGATTAGTGGAAGAGG+TGG | 0.656003 | 2_4:-11460322 | Msa0315240:CDS |
| AAGCAGAAACAAGAGTGCAT+TGG | 0.556590 | 2_4:-11461740 | Msa0315240:CDS |
| AAGGTGTTTAGCCAGTGACA+TGG | 0.587248 | 2_4:-11461428 | Msa0315240:CDS |
| ACAAAAGGTGTTGTGGTCAT+TGG | 0.405074 | 2_4:-11460418 | Msa0315240:CDS |
| ACTTGAGATGGACCACTATA+TGG | 0.313432 | 2_4:+11460448 | None:intergenic |
| AGAAGGTATTTCTGTTGAGA+AGG | 0.494474 | 2_4:-11460167 | Msa0315240:CDS |
| AGAAGTTGAACAACTTGCAA+AGG | 0.598892 | 2_4:-11460191 | Msa0315240:CDS |
| AGAATTGCAAAACGGATTAG+TGG | 0.526118 | 2_4:-11460331 | Msa0315240:CDS |
| AGCGTGACTAGAAATTACGA+TGG | 0.744846 | 2_4:-11462225 | Msa0315240:five_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTGTAAAACATGCTCTATTG+TGG | - | chr2_4:11460117-11460136 | Msa0315240:CDS | 30.0% | |
| AACAAAAACCTTATCAACCT+AGG | + | chr2_4:11460147-11460166 | None:intergenic | 30.0% | |
| AAAATGTTGAAGACAATCCT+AGG | - | chr2_4:11460279-11460298 | Msa0315240:CDS | 30.0% | |
| AGGCTAAAAATCAATTGTAG+AGG | - | chr2_4:11460883-11460902 | Msa0315240:intron | 30.0% | |
| ATTATTCACATAGATGCAAG+CGG | - | chr2_4:11460971-11460990 | Msa0315240:intron | 30.0% | |
| TCTTCAACATTTAGCACAAA+AGG | - | chr2_4:11461230-11461249 | Msa0315240:intron | 30.0% | |
| CTTCAACATTTAGCACAAAA+GGG | - | chr2_4:11461231-11461250 | Msa0315240:intron | 30.0% | |
| TTCAACATTTAGCACAAAAG+GGG | - | chr2_4:11461232-11461251 | Msa0315240:intron | 30.0% | |
| TTTGAAGAGAGAATTTGATG+TGG | - | chr2_4:11461975-11461994 | Msa0315240:intron | 30.0% | |
| TTGAAGAGAGAATTTGATGT+GGG | - | chr2_4:11461976-11461995 | Msa0315240:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 11459794 | 11462294 | 11459794 | ID=Msa0315240;Name=Msa0315240 |
| chr2_4 | mRNA | 11459794 | 11462294 | 11459794 | ID=Msa0315240-mRNA-1;Parent=Msa0315240;Name=Msa0315240-mRNA-1;_AED=0.31;_eAED=0.31;_QI=196|1|1|1|0.5|0.33|3|302|302 |
| chr2_4 | exon | 11459794 | 11460610 | 11459794 | ID=Msa0315240-mRNA-1:exon:4424;Parent=Msa0315240-mRNA-1 |
| chr2_4 | exon | 11461413 | 11461845 | 11461413 | ID=Msa0315240-mRNA-1:exon:4423;Parent=Msa0315240-mRNA-1 |
| chr2_4 | exon | 11462138 | 11462294 | 11462138 | ID=Msa0315240-mRNA-1:exon:4422;Parent=Msa0315240-mRNA-1 |
| chr2_4 | five_prime_UTR | 11462138 | 11462294 | 11462138 | ID=Msa0315240-mRNA-1:five_prime_utr;Parent=Msa0315240-mRNA-1 |
| chr2_4 | five_prime_UTR | 11461807 | 11461845 | 11461807 | ID=Msa0315240-mRNA-1:five_prime_utr;Parent=Msa0315240-mRNA-1 |
| chr2_4 | CDS | 11461413 | 11461806 | 11461413 | ID=Msa0315240-mRNA-1:cds;Parent=Msa0315240-mRNA-1 |
| chr2_4 | CDS | 11460096 | 11460610 | 11460096 | ID=Msa0315240-mRNA-1:cds;Parent=Msa0315240-mRNA-1 |
| chr2_4 | three_prime_UTR | 11459794 | 11460095 | 11459794 | ID=Msa0315240-mRNA-1:three_prime_utr;Parent=Msa0315240-mRNA-1 |
| Gene Sequence |
>Msa0315240 ATGTTGAAGACAATCCTAGGTTGCTGCAAAGTATATATATCAGAAAGCAGAAACAAGAGTGCATTGGAATCAATTGAAAAAGCTGCTAAGTTGTTTCCATTAGCACCAATTATTAACAAGTTTGAAGATGTGGCTTATAATAGAGTTGGTTACACTCTTGTCTCTGAATTGGATTCAGTGTCTAATGAAAAGTCATCATGTGATTTGACAAATGCTGTGTTGGCTATGGTGAAGGCTGCATTTGATAATGTTGATTTTGAGGTTCATAGTGGAACTCATCCTAGACTTGGAGTTGTTGATCATATTTGTTTTCATCCACTGGTTGATGCTTCATTGGATCAAGCAGCTAGGACTGCAAGGTGTTTAGCCAGTGACATGGGTTCTAGTTTGCAAGTTCCTACTTTCTTATATGGAGCAGCACATGAAGAGGGGAGGAAACTTGATTCAATCAGAAGAGCATTTGGTTATTTCAAACCAAATTCCAGCGAAAACCAGTGGATTGGCGTGCAAAAGTCAGACACTTTGCCCTTGAAACCATATAGTGGTCCATCTCAAGTGATTCCAACAAAAGGTGTTGTGGTCATTGGAGCAACGAATTGGGTTGATAACTACAATGTCCCTCTATTATCTTCTGATATTAGCGCCGTTCGCAGAATTGCAAAACGGATTAGTGGAAGAGGTGGTGGTCTCGCTTCTGTACAGGCCATGGCGCTTACACACGGCGAAGGTATCATTGAAGTAGCTTGTAACTTGTTGGATCCAAAGAATGTTGGTGGTGAAAGAGTGCAACAAGAAGTTGAACAACTTGCAAAGGAAGAAGGTATTTCTGTTGAGAAGGGATACTATACAGACTTTTCACAGGAAGAAATAGTTAAAAGTTACTTGAAACTGTTTGAAGAGAGAATTTGA |
| Protein sequence |
>Msa0315240 MLKTILGCCKVYISESRNKSALESIEKAAKLFPLAPIINKFEDVAYNRVGYTLVSELDSVSNEKSSCDLTNAVLAMVKAAFDNVDFEVHSGTHPRLGVVDHICFHPLVDASLDQAARTARCLASDMGSSLQVPTFLYGAAHEEGRKLDSIRRAFGYFKPNSSENQWIGVQKSDTLPLKPYSGPSQVIPTKGVVVIGATNWVDNYNVPLLSSDISAVRRIAKRISGRGGGLASVQAMALTHGEGIIEVACNLLDPKNVGGERVQQEVEQLAKEEGISVEKGYYTDFSQEEIVKSYLKLFEERI* |
