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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0188900 | RYR35552.1 | 57.732 | 97 | 38 | 1 | 104 | 197 | 89 | 185 | 2.43e-19 | 95.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0188900 | A0A445BA41 | 57.732 | 97 | 38 | 1 | 104 | 197 | 89 | 185 | 1.16e-19 | 95.5 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0003890 | Msa0188900 | 0.804451 | 2.146663e-49 | -8.615850e-47 |
| Msa0015610 | Msa0188900 | 0.812430 | 4.255889e-51 | -8.615850e-47 |
| Msa0020930 | Msa0188900 | 0.811600 | 6.454704e-51 | -8.615850e-47 |
| Msa0034110 | Msa0188900 | 0.816642 | 4.977838e-52 | -8.615850e-47 |
| Msa0036140 | Msa0188900 | 0.820946 | 5.243697e-53 | -8.615850e-47 |
| Msa0045790 | Msa0188900 | 0.819039 | 1.431894e-52 | -8.615850e-47 |
| Msa0046160 | Msa0188900 | 0.825404 | 4.775165e-54 | -8.615850e-47 |
| Msa0064800 | Msa0188900 | 0.839165 | 1.865460e-57 | -8.615850e-47 |
| Msa0079380 | Msa0188900 | 0.801194 | 1.010281e-48 | -8.615850e-47 |
| Msa0080090 | Msa0188900 | 0.819896 | 9.126686e-53 | -8.615850e-47 |
Find 260 sgRNAs with CRISPR-Local
Find 1464 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATCCAAACGAAAAGCAG+GGG | 0.622726 | 2_1:-4130583 | None:intergenic |
| AAACAATCCAGTCTGTAAGC+CGG | 0.564048 | 2_1:-4132007 | None:intergenic |
| AAACTGCTATTGAGAAACAA+AGG | 0.604603 | 2_1:+4129764 | Msa0188900:three_prime_UTR |
| AAACTTGAAATAGAGGAAAA+AGG | 0.305445 | 2_1:-4127637 | None:intergenic |
| AAAGGATGCTTGAGGAAAAC+AGG | 0.423850 | 2_1:+4133513 | Msa0188900:three_prime_UTR |
| AAAGGGTCCAGGCATCAAGC+CGG | 0.598580 | 2_1:+4131988 | Msa0188900:three_prime_UTR |
| AAATCATTAGTTGGCTCTTT+TGG | 0.244228 | 2_1:+4129881 | Msa0188900:three_prime_UTR |
| AAATCTTCCAGTTCAAGCCT+CGG | 0.525335 | 2_1:+4129727 | Msa0188900:CDS |
| AACGAAAAGCAGGGGAGAAT+AGG | 0.483486 | 2_1:-4130575 | None:intergenic |
| AAGAAAGGAAATGGTTATAA+AGG | 0.322988 | 2_1:-4130061 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GGAAAGATTAATAACTTCAG+GGG | + | chr2_1:4126994-4127013 | Msa0188900:intron | 30.0% | |
| TTCAAATGACCTATATTTGC+AGG | + | chr2_1:4127023-4127042 | Msa0188900:intron | 30.0% | |
| TCAAATGACCTATATTTGCA+GGG | + | chr2_1:4127024-4127043 | Msa0188900:intron | 30.0% | |
| TGACTACTATAACTTATGGA+TGG | + | chr2_1:4127248-4127267 | Msa0188900:intron | 30.0% | |
| TGTTATAAGTACTTTGTGGA+CGG | - | chr2_1:4127353-4127372 | None:intergenic | 30.0% | |
| ACCCTAGAAAATGAAAATTG+GGG | - | chr2_1:4127530-4127549 | None:intergenic | 30.0% | |
| CTATGTGATATGTACTATTG+AGG | + | chr2_1:4128118-4128137 | Msa0188900:intron | 30.0% | |
| ACTATTGAGGTAGAATGATT+TGG | + | chr2_1:4128131-4128150 | Msa0188900:intron | 30.0% | |
| CTATTGAGGTAGAATGATTT+GGG | + | chr2_1:4128132-4128151 | Msa0188900:intron | 30.0% | |
| TTTATGATGTAAACTGTACC+TGG | + | chr2_1:4128221-4128240 | Msa0188900:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 4126820 | 4133993 | 4126820 | ID=Msa0188900;Name=Msa0188900 |
| chr2_1 | mRNA | 4126820 | 4133993 | 4126820 | ID=Msa0188900-mRNA-1;Parent=Msa0188900;Name=Msa0188900-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0|0.8|0.66|0.83|0.8|0.66|6|3663|205 |
| chr2_1 | exon | 4126820 | 4126945 | 4126820 | ID=Msa0188900-mRNA-1:exon:1839;Parent=Msa0188900-mRNA-1 |
| chr2_1 | exon | 4127547 | 4127674 | 4127547 | ID=Msa0188900-mRNA-1:exon:1840;Parent=Msa0188900-mRNA-1 |
| chr2_1 | exon | 4127895 | 4128091 | 4127895 | ID=Msa0188900-mRNA-1:exon:1841;Parent=Msa0188900-mRNA-1 |
| chr2_1 | exon | 4129591 | 4132019 | 4129591 | ID=Msa0188900-mRNA-1:exon:1842;Parent=Msa0188900-mRNA-1 |
| chr2_1 | exon | 4132072 | 4132960 | 4132072 | ID=Msa0188900-mRNA-1:exon:1843;Parent=Msa0188900-mRNA-1 |
| chr2_1 | exon | 4133482 | 4133993 | 4133482 | ID=Msa0188900-mRNA-1:exon:1844;Parent=Msa0188900-mRNA-1 |
| chr2_1 | CDS | 4126820 | 4126945 | 4126820 | ID=Msa0188900-mRNA-1:cds;Parent=Msa0188900-mRNA-1 |
| chr2_1 | CDS | 4127547 | 4127674 | 4127547 | ID=Msa0188900-mRNA-1:cds;Parent=Msa0188900-mRNA-1 |
| chr2_1 | CDS | 4127895 | 4128091 | 4127895 | ID=Msa0188900-mRNA-1:cds;Parent=Msa0188900-mRNA-1 |
| chr2_1 | CDS | 4129591 | 4129757 | 4129591 | ID=Msa0188900-mRNA-1:cds;Parent=Msa0188900-mRNA-1 |
| chr2_1 | three_prime_UTR | 4129758 | 4132019 | 4129758 | ID=Msa0188900-mRNA-1:three_prime_utr;Parent=Msa0188900-mRNA-1 |
| chr2_1 | three_prime_UTR | 4132072 | 4132960 | 4132072 | ID=Msa0188900-mRNA-1:three_prime_utr;Parent=Msa0188900-mRNA-1 |
| chr2_1 | three_prime_UTR | 4133482 | 4133993 | 4133482 | ID=Msa0188900-mRNA-1:three_prime_utr;Parent=Msa0188900-mRNA-1 |
| Gene Sequence |
>Msa0188900 ATGGAGACATGGGTGATTTGGTCTTTTTGCGCATCTCCTGATCCATTAAGGGCAAAAATGTCATTGCACCTACCTTCTGCTTACGTGAGCCACATTGCTAATTACCATCCACCTCATCAAAAATACGGTTTGCAGATTTTCAATTTCCCAATTCCTCCATACTTTCATCTCGATAACCATAAATTCAACTCTATATCACAACACAACATCTCTCTTCCTTTTTCCTCTATTTCAAGTTTCCCTTCATTTTTCAGGGAAACTTTATCTTTGTCTGATTGTGAAAAGTATATTTTTGAGCTCATTGGGGATCGGGTGTTGGGAGGATGCCTAGAGACTTGTCGCGATCCCGATCGCCTCCCTACAGGCGTAGGCATTCACCGTCACCGGTTGGACATAGATATAGCAGGAGGAGCAGACGTGATAGAAGCCGGTCTCCATATTCGTATAGCAGGCGAAAAAGTCGTTCTATTTCACCAAGAGGCCGCAGAAGTCCTTCTACAACTACTTGGCGTCGCAGAAGTCGATCTCCAACTGCAAAACGATACAGAAGACAAAGAAGTAGGAGTTCCTCATTGTCTCCTGCTCATAAATCTTCCAGTTCAAGCCTCGGGTCAGTAG |
| Protein sequence |
>Msa0188900 METWVIWSFCASPDPLRAKMSLHLPSAYVSHIANYHPPHQKYGLQIFNFPIPPYFHLDNHKFNSISQHNISLPFSSISSFPSFFRETLSLSDCEKYIFELIGDRVLGGCLETCRDPDRLPTGVGIHRHRLDIDIAGGADVIEAGLHIRIAGEKVVLFHQEAAEVLLQLLGVAEVDLQLQNDTEDKEVGVPHCLLLINLPVQASGQ* |
