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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1034240 | KEH23613.1 | 100.000 | 129 | 0 | 0 | 1 | 129 | 289 | 417 | 3.21e-85 | 265 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1034240 | sp|Q8S0G4|GPDH1_ORYSJ | 89.147 | 129 | 14 | 0 | 1 | 129 | 288 | 416 | 2.12e-78 | 241 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1034240 | A0A072U398 | 100.000 | 129 | 0 | 0 | 1 | 129 | 289 | 417 | 1.53e-85 | 265 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1034240 | Msa1122030 | 0.807440 | 5.049302e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1034240 | MtrunA17_Chr7g0257111 | 100.000 | 129 | 0 | 0 | 1 | 129 | 289 | 417 | 5.93e-89 | 265 |
| Msa1034240 | MtrunA17_Chr4g0020581 | 91.473 | 129 | 11 | 0 | 1 | 129 | 289 | 417 | 3.82e-79 | 240 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1034240 | AT3G07690.2 | 84.496 | 129 | 20 | 0 | 1 | 129 | 287 | 415 | 1.11e-72 | 224 |
| Msa1034240 | AT3G07690.1 | 84.496 | 129 | 20 | 0 | 1 | 129 | 297 | 425 | 1.19e-72 | 224 |
| Msa1034240 | AT2G41540.3 | 88.372 | 129 | 15 | 0 | 1 | 129 | 294 | 422 | 4.83e-69 | 214 |
| Msa1034240 | AT2G41540.1 | 88.372 | 129 | 15 | 0 | 1 | 129 | 294 | 422 | 4.83e-69 | 214 |
| Msa1034240 | AT2G41540.4 | 88.372 | 129 | 15 | 0 | 1 | 129 | 294 | 422 | 4.83e-69 | 214 |
| Msa1034240 | AT2G41540.2 | 88.372 | 129 | 15 | 0 | 1 | 129 | 294 | 422 | 4.83e-69 | 214 |
Find 28 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTCAGGATGCAATACATTT+AGG | 0.253998 | 7_1:+69664461 | None:intergenic |
| ACTTATGTGACATTGTTAAA+AGG | 0.274708 | 7_1:-69664772 | Msa1034240:CDS |
| TCTCAGGCTCTTCAGTTAAC+AGG | 0.316025 | 7_1:+69664821 | None:intergenic |
| GCAATACATTTAGGCTTGAT+TGG | 0.338071 | 7_1:+69664470 | None:intergenic |
| CTAATGCTGTCACCCATGTC+AGG | 0.381833 | 7_1:+69664703 | None:intergenic |
| GAAGAGCCTGAGAAACTTGC+TGG | 0.392061 | 7_1:-69664811 | Msa1034240:CDS |
| TAGCGGCAAAGGAATGATTC+AGG | 0.431970 | 7_1:-69664683 | Msa1034240:intron |
| TTGTAGAGTGTCTTCAGGAT+AGG | 0.442108 | 7_1:+69664406 | None:intergenic |
| AGGATAGGGCAAAGTTCAAC+AGG | 0.442918 | 7_1:+69664421 | None:intergenic |
| TGTAGAGTGTCTTCAGGATA+GGG | 0.449158 | 7_1:+69664407 | None:intergenic |
| TTTGCTAGTAGCACTCTCAT+TGG | 0.465676 | 7_1:+69664891 | None:intergenic |
| AATGGTCCAGCAAGTTTCTC+AGG | 0.467384 | 7_1:+69664805 | None:intergenic |
| TTGTTATGAGAATGATTACC+TGG | 0.475997 | 7_1:+69664372 | None:intergenic |
| TCTACAAAATATTGATATCC+AGG | 0.488839 | 7_1:-69664390 | Msa1034240:CDS |
| TAGTAGCACTCTCATTGGTA+AGG | 0.499488 | 7_1:+69664896 | None:intergenic |
| CTAGGGAGTGTCTGCAGTGG+AGG | 0.524080 | 7_1:-69664512 | Msa1034240:intron |
| GTACGGTCAAATGTTAGCTA+AGG | 0.537842 | 7_1:-69664737 | Msa1034240:CDS |
| AAAGGTCGTAACGCGTGGTA+CGG | 0.542056 | 7_1:-69664754 | Msa1034240:CDS |
| GACATGGGTGACAGCATTAG+CGG | 0.546090 | 7_1:-69664700 | Msa1034240:CDS |
| GGTGACAGCATTAGCGGCAA+AGG | 0.550945 | 7_1:-69664694 | Msa1034240:CDS |
| GGGTGAACTAAGCCCTGACA+TGG | 0.571055 | 7_1:-69664716 | Msa1034240:CDS |
| TAATGCTGTCACCCATGTCA+GGG | 0.593470 | 7_1:+69664704 | None:intergenic |
| AGTAGCACTCTCATTGGTAA+GGG | 0.611334 | 7_1:+69664897 | None:intergenic |
| TACGGTCAAATGTTAGCTAA+GGG | 0.616531 | 7_1:-69664736 | Msa1034240:CDS |
| ACATAAGTATCAGCTAGTAA+TGG | 0.625233 | 7_1:+69664787 | None:intergenic |
| TGTTAAAAGGTCGTAACGCG+TGG | 0.645736 | 7_1:-69664759 | Msa1034240:CDS |
| TTACTAGGGAGTGTCTGCAG+TGG | 0.667334 | 7_1:-69664515 | Msa1034240:intron |
| GGTGAACTAAGCCCTGACAT+GGG | 0.690260 | 7_1:-69664715 | Msa1034240:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATTTTTTGTTTTTTGAAA+CGG | + | chr7_1:69664664-69664683 | None:intergenic | 10.0% |
| ! | ACTTATGTGACATTGTTAAA+AGG | - | chr7_1:69664522-69664541 | Msa1034240:intron | 25.0% |
| ! | GTATCTTCAAAATGTCAAAT+AGG | - | chr7_1:69664695-69664714 | Msa1034240:CDS | 25.0% |
| ! | ACATGTCAATTATCTTTACT+AGG | - | chr7_1:69664764-69664783 | Msa1034240:CDS | 25.0% |
| ! | CATGTCAATTATCTTTACTA+GGG | - | chr7_1:69664765-69664784 | Msa1034240:CDS | 25.0% |
| ! | TCTACAAAATATTGATATCC+AGG | - | chr7_1:69664904-69664923 | Msa1034240:CDS | 25.0% |
| ACATAAGTATCAGCTAGTAA+TGG | + | chr7_1:69664510-69664529 | None:intergenic | 30.0% | |
| !! | ATATTTTGTAGAGTGTCTTC+AGG | + | chr7_1:69664896-69664915 | None:intergenic | 30.0% |
| TACGGTCAAATGTTAGCTAA+GGG | - | chr7_1:69664558-69664577 | Msa1034240:intron | 35.0% | |
| GCAATACATTTAGGCTTGAT+TGG | + | chr7_1:69664827-69664846 | None:intergenic | 35.0% | |
| CTTCAGGATGCAATACATTT+AGG | + | chr7_1:69664836-69664855 | None:intergenic | 35.0% | |
| !!! | GCAACATGCTTTTTTTCTTC+AGG | + | chr7_1:69664852-69664871 | None:intergenic | 35.0% |
| AGTAGCACTCTCATTGGTAA+GGG | + | chr7_1:69664400-69664419 | None:intergenic | 40.0% | |
| TAGTAGCACTCTCATTGGTA+AGG | + | chr7_1:69664401-69664420 | None:intergenic | 40.0% | |
| TTTGCTAGTAGCACTCTCAT+TGG | + | chr7_1:69664406-69664425 | None:intergenic | 40.0% | |
| GTACGGTCAAATGTTAGCTA+AGG | - | chr7_1:69664557-69664576 | Msa1034240:intron | 40.0% | |
| ! | TGTAGAGTGTCTTCAGGATA+GGG | + | chr7_1:69664890-69664909 | None:intergenic | 40.0% |
| ! | TTGTAGAGTGTCTTCAGGAT+AGG | + | chr7_1:69664891-69664910 | None:intergenic | 40.0% |
| TCTCAGGCTCTTCAGTTAAC+AGG | + | chr7_1:69664476-69664495 | None:intergenic | 45.0% | |
| AATGGTCCAGCAAGTTTCTC+AGG | + | chr7_1:69664492-69664511 | None:intergenic | 45.0% | |
| TGTTAAAAGGTCGTAACGCG+TGG | - | chr7_1:69664535-69664554 | Msa1034240:intron | 45.0% | |
| TAATGCTGTCACCCATGTCA+GGG | + | chr7_1:69664593-69664612 | None:intergenic | 45.0% | |
| TAGCGGCAAAGGAATGATTC+AGG | - | chr7_1:69664611-69664630 | Msa1034240:intron | 45.0% | |
| AGGATAGGGCAAAGTTCAAC+AGG | + | chr7_1:69664876-69664895 | None:intergenic | 45.0% | |
| GAAGAGCCTGAGAAACTTGC+TGG | - | chr7_1:69664483-69664502 | Msa1034240:CDS | 50.0% | |
| AAAGGTCGTAACGCGTGGTA+CGG | - | chr7_1:69664540-69664559 | Msa1034240:intron | 50.0% | |
| GGTGAACTAAGCCCTGACAT+GGG | - | chr7_1:69664579-69664598 | Msa1034240:intron | 50.0% | |
| CTAATGCTGTCACCCATGTC+AGG | + | chr7_1:69664594-69664613 | None:intergenic | 50.0% | |
| GACATGGGTGACAGCATTAG+CGG | - | chr7_1:69664594-69664613 | Msa1034240:intron | 50.0% | |
| !! | TTACTAGGGAGTGTCTGCAG+TGG | - | chr7_1:69664779-69664798 | Msa1034240:CDS | 50.0% |
| GGGTGAACTAAGCCCTGACA+TGG | - | chr7_1:69664578-69664597 | Msa1034240:intron | 55.0% | |
| GGTGACAGCATTAGCGGCAA+AGG | - | chr7_1:69664600-69664619 | Msa1034240:intron | 55.0% | |
| !! | CTAGGGAGTGTCTGCAGTGG+AGG | - | chr7_1:69664782-69664801 | Msa1034240:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 69664387 | 69664929 | 69664387 | ID=Msa1034240;Name=Msa1034240 |
| chr7_1 | mRNA | 69664387 | 69664929 | 69664387 | ID=Msa1034240-mRNA-1;Parent=Msa1034240;Name=Msa1034240-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|1|0|1|1|1|2|0|129 |
| chr7_1 | exon | 69664684 | 69664929 | 69664684 | ID=Msa1034240-mRNA-1:exon:16471;Parent=Msa1034240-mRNA-1 |
| chr7_1 | exon | 69664387 | 69664530 | 69664387 | ID=Msa1034240-mRNA-1:exon:16470;Parent=Msa1034240-mRNA-1 |
| chr7_1 | CDS | 69664684 | 69664929 | 69664684 | ID=Msa1034240-mRNA-1:cds;Parent=Msa1034240-mRNA-1 |
| chr7_1 | CDS | 69664387 | 69664530 | 69664387 | ID=Msa1034240-mRNA-1:cds;Parent=Msa1034240-mRNA-1 |
| Gene Sequence |
| Protein sequence |
