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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0613820 | XP_003608382.2 | 95.588 | 68 | 3 | 0 | 1 | 68 | 1 | 68 | 5.72e-39 | 144 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0613820 | sp|Q9S7V4|HA22A_ARATH | 48.387 | 62 | 32 | 0 | 6 | 67 | 8 | 69 | 3.40e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0613820 | G7JV31 | 95.588 | 68 | 3 | 0 | 1 | 68 | 1 | 68 | 2.73e-39 | 144 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0613820 | Msa0613870 | 0.898017 | 8.003999e-77 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0613820 | MtrunA17_Chr4g0049651 | 95.588 | 68 | 3 | 0 | 1 | 68 | 1 | 68 | 5.26e-43 | 144 |
| Msa0613820 | MtrunA17_Chr4g0049671 | 70.588 | 68 | 11 | 1 | 1 | 68 | 1 | 59 | 1.78e-25 | 97.1 |
| Msa0613820 | MtrunA17_Chr4g0049701 | 80.769 | 52 | 10 | 0 | 17 | 68 | 14 | 65 | 1.30e-22 | 87.8 |
| Msa0613820 | MtrunA17_Chr4g0049691 | 48.649 | 111 | 13 | 3 | 1 | 67 | 1 | 111 | 2.27e-20 | 77.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0613820 | AT1G74520.1 | 48.387 | 62 | 32 | 0 | 6 | 67 | 8 | 69 | 3.45e-12 | 58.2 |
| Msa0613820 | AT1G74520.2 | 48.387 | 62 | 32 | 0 | 6 | 67 | 8 | 69 | 3.45e-12 | 58.2 |
| Msa0613820 | AT5G62490.1 | 47.541 | 61 | 32 | 0 | 7 | 67 | 9 | 69 | 1.29e-11 | 56.6 |
Find 18 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCCATTCGGAGCTTGAATT+TGG | 0.152842 | 4_2:-62724206 | Msa0613820:five_prime_UTR |
| GAATTTGGGTTGGTAGTAAA+TGG | 0.202975 | 4_2:-62724191 | Msa0613820:exon |
| CATACCATGCAAAATGATAA+AGG | 0.301623 | 4_2:+62724134 | None:intergenic |
| TTCTTCATGGTTTCTCAAAC+TGG | 0.304002 | 4_2:-62724167 | Msa0613820:CDS |
| CTCCGAATGGAAAAGGAAAA+TGG | 0.330831 | 4_2:+62724217 | None:intergenic |
| TTCTAGGCCTCTTGTTGCTC+TGG | 0.337704 | 4_2:-62724012 | Msa0613820:intron |
| CTAAGGATTTGATCTCATAT+TGG | 0.368288 | 4_2:-62723819 | Msa0613820:CDS |
| TCCATTCGGAGCTTGAATTT+GGG | 0.371252 | 4_2:-62724205 | Msa0613820:five_prime_UTR |
| ATATTCAAAGAGGTAAATTA+AGG | 0.374191 | 4_2:+62723786 | None:intergenic |
| GGTAGTAAATGGATTCTTCA+TGG | 0.377876 | 4_2:-62724180 | Msa0613820:exon |
| GTCAGTTTCAATTGCTTGTA+CGG | 0.466858 | 4_2:+62723855 | None:intergenic |
| ATTCAAGCTCCGAATGGAAA+AGG | 0.483180 | 4_2:+62724210 | None:intergenic |
| TGACTCATATGCAGAAACTA+AGG | 0.505188 | 4_2:-62723836 | Msa0613820:CDS |
| AAAGAATTTACCGTAGAAGA+AGG | 0.542698 | 4_2:+62723752 | None:intergenic |
| TTCGGAGCTTGAATTTGGGT+TGG | 0.553560 | 4_2:-62724201 | Msa0613820:five_prime_UTR |
| ACCCAAATTCAAGCTCCGAA+TGG | 0.576931 | 4_2:+62724204 | None:intergenic |
| TCATAAAAGCATATTCAAAG+AGG | 0.621411 | 4_2:+62723776 | None:intergenic |
| GGATACACCAGAGCAACAAG+AGG | 0.670998 | 4_2:+62724005 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAAAAAGATGAAGAAAATAA+AGG | + | chr4_2:62723925-62723944 | None:intergenic | 20.0% |
| !! | ATATTCAAAGAGGTAAATTA+AGG | + | chr4_2:62724228-62724247 | None:intergenic | 20.0% |
| ! | AAGATGAAGAAAATAAAGGA+GGG | + | chr4_2:62723921-62723940 | None:intergenic | 25.0% |
| ! | AAAGATGAAGAAAATAAAGG+AGG | + | chr4_2:62723922-62723941 | None:intergenic | 25.0% |
| !! | TTATTTCCTTCTCTTTTTCT+AGG | - | chr4_2:62723983-62724002 | Msa0613820:intron | 25.0% |
| ! | TGTCAAGACAATAATGTAAA+AGG | + | chr4_2:62724079-62724098 | None:intergenic | 25.0% |
| !! | TCATAAAAGCATATTCAAAG+AGG | + | chr4_2:62724238-62724257 | None:intergenic | 25.0% |
| ! | TTCCATTTTCCTTTTCCATT+CGG | - | chr4_2:62723792-62723811 | Msa0613820:CDS | 30.0% |
| ! | AATGCCTTTATCATTTTGCA+TGG | - | chr4_2:62723873-62723892 | Msa0613820:intron | 30.0% |
| CATACCATGCAAAATGATAA+AGG | + | chr4_2:62723880-62723899 | None:intergenic | 30.0% | |
| !!! | TTTGTGATTACTGTTTTGAC+AGG | - | chr4_2:62724126-62724145 | Msa0613820:intron | 30.0% |
| CTAAGGATTTGATCTCATAT+TGG | - | chr4_2:62724192-62724211 | Msa0613820:exon | 30.0% | |
| !! | GAATTTGGGTTGGTAGTAAA+TGG | - | chr4_2:62723820-62723839 | Msa0613820:CDS | 35.0% |
| ! | GGTAGTAAATGGATTCTTCA+TGG | - | chr4_2:62723831-62723850 | Msa0613820:CDS | 35.0% |
| TTCTTCATGGTTTCTCAAAC+TGG | - | chr4_2:62723844-62723863 | Msa0613820:CDS | 35.0% | |
| GTCAGTTTCAATTGCTTGTA+CGG | + | chr4_2:62724159-62724178 | None:intergenic | 35.0% | |
| TGACTCATATGCAGAAACTA+AGG | - | chr4_2:62724175-62724194 | Msa0613820:CDS | 35.0% | |
| ! | CTTTTATGAGCCTTCTTCTA+CGG | - | chr4_2:62724249-62724268 | Msa0613820:five_prime_UTR | 35.0% |
| CTCCGAATGGAAAAGGAAAA+TGG | + | chr4_2:62723797-62723816 | None:intergenic | 40.0% | |
| ATTCAAGCTCCGAATGGAAA+AGG | + | chr4_2:62723804-62723823 | None:intergenic | 40.0% | |
| TTCCATTCGGAGCTTGAATT+TGG | - | chr4_2:62723805-62723824 | Msa0613820:CDS | 40.0% | |
| TCCATTCGGAGCTTGAATTT+GGG | - | chr4_2:62723806-62723825 | Msa0613820:CDS | 40.0% | |
| AAGAGGCCTAGAAAAAGAGA+AGG | + | chr4_2:62723992-62724011 | None:intergenic | 40.0% | |
| TCCCATGTAAGTTCTTGATC+TGG | - | chr4_2:62724026-62724045 | Msa0613820:intron | 40.0% | |
| GCCAGATCAAGAACTTACAT+GGG | + | chr4_2:62724030-62724049 | None:intergenic | 40.0% | |
| AGCCAGATCAAGAACTTACA+TGG | + | chr4_2:62724031-62724050 | None:intergenic | 40.0% | |
| AAGTTCTTGATCTGGCTGTT+TGG | - | chr4_2:62724034-62724053 | Msa0613820:intron | 40.0% | |
| ACCCAAATTCAAGCTCCGAA+TGG | + | chr4_2:62723810-62723829 | None:intergenic | 45.0% | |
| TTCGGAGCTTGAATTTGGGT+TGG | - | chr4_2:62723810-62723829 | Msa0613820:CDS | 45.0% | |
| TTCTAGGCCTCTTGTTGCTC+TGG | - | chr4_2:62723999-62724018 | Msa0613820:intron | 50.0% | |
| GGATACACCAGAGCAACAAG+AGG | + | chr4_2:62724009-62724028 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 62723759 | 62724274 | 62723759 | ID=Msa0613820;Name=Msa0613820 |
| chr4_2 | mRNA | 62723759 | 62724274 | 62723759 | ID=Msa0613820-mRNA-1;Parent=Msa0613820;Name=Msa0613820-mRNA-1;_AED=0.49;_eAED=0.49;_QI=80|1|0.66|1|1|1|3|0|69 |
| chr4_2 | exon | 62723759 | 62723885 | 62723759 | ID=Msa0613820-mRNA-1:exon:17348;Parent=Msa0613820-mRNA-1 |
| chr4_2 | exon | 62724002 | 62724028 | 62724002 | ID=Msa0613820-mRNA-1:exon:17347;Parent=Msa0613820-mRNA-1 |
| chr4_2 | exon | 62724139 | 62724274 | 62724139 | ID=Msa0613820-mRNA-1:exon:17346;Parent=Msa0613820-mRNA-1 |
| chr4_2 | five_prime_UTR | 62724195 | 62724274 | 62724195 | ID=Msa0613820-mRNA-1:five_prime_utr;Parent=Msa0613820-mRNA-1 |
| chr4_2 | CDS | 62724139 | 62724194 | 62724139 | ID=Msa0613820-mRNA-1:cds;Parent=Msa0613820-mRNA-1 |
| chr4_2 | CDS | 62724002 | 62724028 | 62724002 | ID=Msa0613820-mRNA-1:cds;Parent=Msa0613820-mRNA-1 |
| chr4_2 | CDS | 62723759 | 62723885 | 62723759 | ID=Msa0613820-mRNA-1:cds;Parent=Msa0613820-mRNA-1 |
| Gene Sequence |
| Protein sequence |
