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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0155090 | A0A072VF38 | 86.667 | 45 | 6 | 0 | 1 | 45 | 132 | 176 | 9.36e-17 | 85.1 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0059490 | Msa0155090 | 0.926443 | 4.659489e-91 | -8.615850e-47 |
| Msa0104310 | Msa0155090 | 0.904685 | 9.480787e-80 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0155090 | MtrunA17_Chr1g0158511 | 86.667 | 45 | 6 | 0 | 1 | 45 | 132 | 176 | 1.80e-20 | 85.1 |
| Msa0155090 | MtrunA17_Chr1g0158471 | 82.222 | 45 | 8 | 0 | 1 | 45 | 132 | 176 | 3.32e-18 | 78.6 |
| Msa0155090 | MtrunA17_Chr6g0467661 | 83.784 | 37 | 6 | 0 | 9 | 45 | 127 | 163 | 1.61e-14 | 68.2 |
| Msa0155090 | MtrunA17_Chr6g0467681 | 83.784 | 37 | 6 | 0 | 9 | 45 | 127 | 163 | 1.61e-14 | 68.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTGTGCTTGTTCTTGTATT+TGG | 0.207845 | 1_4:+20083815 | Msa0155090:CDS |
| TCAAATGCTGCCATATAAAT+TGG | 0.251703 | 1_4:-20083447 | None:intergenic |
| TTTCCGGTAGAATCTTATAA+TGG | 0.255392 | 1_4:+20083543 | Msa0155090:intron |
| GATTTCTTGTCCAATTTATA+TGG | 0.258801 | 1_4:+20083437 | Msa0155090:CDS |
| CTACCGGAAAATAACGAATA+AGG | 0.258983 | 1_4:-20083530 | None:intergenic |
| TAAAACTCGTTGAGACAATT+TGG | 0.292094 | 1_4:-20083505 | None:intergenic |
| TACCGGAAAATAACGAATAA+GGG | 0.363168 | 1_4:-20083529 | None:intergenic |
| TTCCGGTAGAATCTTATAAT+GGG | 0.375651 | 1_4:+20083544 | Msa0155090:intron |
| GGCAGCATTTGAGGACGATA+TGG | 0.387227 | 1_4:+20083458 | Msa0155090:CDS |
| AATTTATATGGCAGCATTTG+AGG | 0.412347 | 1_4:+20083449 | Msa0155090:CDS |
| GCTGCTCATCTCCATACATT+TGG | 0.414735 | 1_4:-20083407 | None:intergenic |
| TAATTTGTAGGTGCAATCAT+TGG | 0.424052 | 1_4:+20083788 | Msa0155090:intron |
| CAACCATGATAATGAGATTG+AGG | 0.430486 | 1_4:-20083583 | None:intergenic |
| CTCAATCTCATTATCATGGT+TGG | 0.430712 | 1_4:+20083584 | Msa0155090:CDS |
| CAAAAGGACTACCAAATGTA+TGG | 0.442461 | 1_4:+20083396 | None:intergenic |
| ACAATTTGGTGCAGAATACA+AGG | 0.496774 | 1_4:-20083491 | None:intergenic |
| AAACCTCAATCTCATTATCA+TGG | 0.529545 | 1_4:+20083580 | Msa0155090:CDS |
| ATAGGGCTTTAAAGCCAACT+AGG | 0.530383 | 1_4:+20083915 | Msa0155090:three_prime_UTR |
| TCTGCATAAGAGAACCTAGT+TGG | 0.547736 | 1_4:-20083929 | None:intergenic |
| AATGTATGGAGATGAGCAGC+AGG | 0.577317 | 1_4:+20083410 | Msa0155090:CDS |
| ACCGGAAAATAACGAATAAG+GGG | 0.603388 | 1_4:-20083528 | None:intergenic |
| TGAATGTATCTCACCTGCAG+AGG | 0.618845 | 1_4:-20083667 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGTTGAATTATTAATTTGT+AGG | + | chr1_4:20083776-20083795 | Msa0155090:intron | 15.0% |
| !!! | AAGAATTGAAAACTTTTTGA+AGG | + | chr1_4:20083889-20083908 | Msa0155090:three_prime_UTR | 20.0% |
| !!! | AAAACTTTTTGAAGGATTAT+AGG | + | chr1_4:20083897-20083916 | Msa0155090:three_prime_UTR | 20.0% |
| !!! | AAACTTTTTGAAGGATTATA+GGG | + | chr1_4:20083898-20083917 | Msa0155090:three_prime_UTR | 20.0% |
| ! | GATTTCTTGTCCAATTTATA+TGG | + | chr1_4:20083437-20083456 | Msa0155090:CDS | 25.0% |
| !!! | TTGGAAACAAATTTTGACAA+AGG | + | chr1_4:20083603-20083622 | Msa0155090:CDS | 25.0% |
| ! | TTCACTTCAATACTTTCATT+TGG | + | chr1_4:20083686-20083705 | Msa0155090:intron | 25.0% |
| !!! | ACTTTCATTTGGTTTGATTT+TGG | + | chr1_4:20083697-20083716 | Msa0155090:intron | 25.0% |
| !!! | CTTTCATTTGGTTTGATTTT+GGG | + | chr1_4:20083698-20083717 | Msa0155090:intron | 25.0% |
| !!! | TTTCATTTGGTTTGATTTTG+GGG | + | chr1_4:20083699-20083718 | Msa0155090:intron | 25.0% |
| !!! | TATGTAGCTGTGATTTTTTA+AGG | + | chr1_4:20083753-20083772 | Msa0155090:intron | 25.0% |
| TCAAATGCTGCCATATAAAT+TGG | - | chr1_4:20083450-20083469 | None:intergenic | 30.0% | |
| AATTTATATGGCAGCATTTG+AGG | + | chr1_4:20083449-20083468 | Msa0155090:CDS | 30.0% | |
| TAAAACTCGTTGAGACAATT+TGG | - | chr1_4:20083508-20083527 | None:intergenic | 30.0% | |
| TACCGGAAAATAACGAATAA+GGG | - | chr1_4:20083532-20083551 | None:intergenic | 30.0% | |
| TTTCCGGTAGAATCTTATAA+TGG | + | chr1_4:20083543-20083562 | Msa0155090:intron | 30.0% | |
| TTCCGGTAGAATCTTATAAT+GGG | + | chr1_4:20083544-20083563 | Msa0155090:intron | 30.0% | |
| AAACCTCAATCTCATTATCA+TGG | + | chr1_4:20083580-20083599 | Msa0155090:CDS | 30.0% | |
| !! | AAGATTATTTTATCCTCTGC+AGG | + | chr1_4:20083654-20083673 | Msa0155090:CDS | 30.0% |
| ! | TAATTTGTAGGTGCAATCAT+TGG | + | chr1_4:20083788-20083807 | Msa0155090:intron | 30.0% |
| !! | ACAATTTGGTGCAGAATACA+AGG | - | chr1_4:20083494-20083513 | None:intergenic | 35.0% |
| !! | ACCCCTTATTCGTTATTTTC+CGG | + | chr1_4:20083527-20083546 | Msa0155090:CDS | 35.0% |
| ACCGGAAAATAACGAATAAG+GGG | - | chr1_4:20083531-20083550 | None:intergenic | 35.0% | |
| CTACCGGAAAATAACGAATA+AGG | - | chr1_4:20083533-20083552 | None:intergenic | 35.0% | |
| AGCCCATTATAAGATTCTAC+CGG | - | chr1_4:20083549-20083568 | None:intergenic | 35.0% | |
| ! | CAACCATGATAATGAGATTG+AGG | - | chr1_4:20083586-20083605 | None:intergenic | 35.0% |
| CTCAATCTCATTATCATGGT+TGG | + | chr1_4:20083584-20083603 | Msa0155090:CDS | 35.0% | |
| !!! | ATTTGGTTTGATTTTGGGGT+TGG | + | chr1_4:20083703-20083722 | Msa0155090:intron | 35.0% |
| ACTGTGCTTGTTCTTGTATT+TGG | + | chr1_4:20083815-20083834 | Msa0155090:CDS | 35.0% | |
| !! | ATAGGGCTTTAAAGCCAACT+AGG | + | chr1_4:20083915-20083934 | Msa0155090:three_prime_UTR | 40.0% |
| TCTGCATAAGAGAACCTAGT+TGG | - | chr1_4:20083932-20083951 | None:intergenic | 40.0% | |
| GCTGCTCATCTCCATACATT+TGG | - | chr1_4:20083410-20083429 | None:intergenic | 45.0% | |
| AATGTATGGAGATGAGCAGC+AGG | + | chr1_4:20083410-20083429 | Msa0155090:CDS | 45.0% | |
| TGAATGTATCTCACCTGCAG+AGG | - | chr1_4:20083670-20083689 | None:intergenic | 45.0% | |
| GGCAGCATTTGAGGACGATA+TGG | + | chr1_4:20083458-20083477 | Msa0155090:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 20083402 | 20083960 | 20083402 | ID=Msa0155090;Name=Msa0155090 |
| chr1_4 | mRNA | 20083402 | 20083960 | 20083402 | ID=Msa0155090-mRNA-1;Parent=Msa0155090;Name=Msa0155090-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0|0.5|0.33|1|0.5|0|3|88|114 |
| chr1_4 | exon | 20083402 | 20083548 | 20083402 | ID=Msa0155090-mRNA-1:exon:7364;Parent=Msa0155090-mRNA-1 |
| chr1_4 | exon | 20083553 | 20083675 | 20083553 | ID=Msa0155090-mRNA-1:exon:7365;Parent=Msa0155090-mRNA-1 |
| chr1_4 | exon | 20083798 | 20083960 | 20083798 | ID=Msa0155090-mRNA-1:exon:7366;Parent=Msa0155090-mRNA-1 |
| chr1_4 | CDS | 20083402 | 20083548 | 20083402 | ID=Msa0155090-mRNA-1:cds;Parent=Msa0155090-mRNA-1 |
| chr1_4 | CDS | 20083553 | 20083675 | 20083553 | ID=Msa0155090-mRNA-1:cds;Parent=Msa0155090-mRNA-1 |
| chr1_4 | CDS | 20083798 | 20083872 | 20083798 | ID=Msa0155090-mRNA-1:cds;Parent=Msa0155090-mRNA-1 |
| chr1_4 | three_prime_UTR | 20083873 | 20083960 | 20083873 | ID=Msa0155090-mRNA-1:three_prime_utr;Parent=Msa0155090-mRNA-1 |
| Gene Sequence |
| Protein sequence |
