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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0059490 | XP_013466331.1 | 86.667 | 45 | 6 | 0 | 1 | 45 | 132 | 176 | 4.22e-16 | 84.3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0059490 | A0A072VF38 | 86.667 | 45 | 6 | 0 | 1 | 45 | 132 | 176 | 2.02e-16 | 84.3 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0059490 | Msa0100080 | 0.801037 | 1.087621e-48 | -8.615850e-47 |
| Msa0059490 | Msa0104310 | 0.906240 | 1.832422e-80 | -8.615850e-47 |
| Msa0059490 | Msa0155090 | 0.926443 | 4.659489e-91 | -8.615850e-47 |
| Msa0059490 | Msa0615220 | 0.803976 | 2.695566e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0059490 | MtrunA17_Chr1g0158511 | 86.667 | 45 | 6 | 0 | 1 | 45 | 132 | 176 | 3.88e-20 | 84.3 |
| Msa0059490 | MtrunA17_Chr1g0158471 | 82.222 | 45 | 8 | 0 | 1 | 45 | 132 | 176 | 7.66e-18 | 77.8 |
| Msa0059490 | MtrunA17_Chr6g0467661 | 81.081 | 37 | 7 | 0 | 9 | 45 | 127 | 163 | 1.66e-13 | 65.1 |
| Msa0059490 | MtrunA17_Chr6g0467681 | 81.081 | 37 | 7 | 0 | 9 | 45 | 127 | 163 | 1.72e-13 | 65.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTGTGCTTGTTCTTGTATT+TGG | 0.207845 | 1_2:+16295052 | Msa0059490:CDS |
| TCAAATGCTGCCATATAAAT+TGG | 0.251703 | 1_2:-16294684 | None:intergenic |
| TTTCCGGTAGAATCTTATAA+TGG | 0.255392 | 1_2:+16294780 | Msa0059490:intron |
| GATTTCTTGTCCAATTTATA+TGG | 0.258801 | 1_2:+16294674 | Msa0059490:CDS |
| CTACCGGAAAATAACGAATA+AGG | 0.258983 | 1_2:-16294767 | None:intergenic |
| TAAAACTCGTTGAGACAATT+TGG | 0.292094 | 1_2:-16294742 | None:intergenic |
| TACCGGAAAATAACGAATAA+GGG | 0.363168 | 1_2:-16294766 | None:intergenic |
| TTCCGGTAGAATCTTATAAT+GGG | 0.375651 | 1_2:+16294781 | Msa0059490:intron |
| GGCAGCATTTGAGGACGATA+TGG | 0.387227 | 1_2:+16294695 | Msa0059490:CDS |
| AATTTATATGGCAGCATTTG+AGG | 0.412347 | 1_2:+16294686 | Msa0059490:CDS |
| GCTGCTCATCTCCATACATT+TGG | 0.414735 | 1_2:-16294644 | None:intergenic |
| TAATTTGTAGGTGCAATCAT+TGG | 0.424052 | 1_2:+16295025 | Msa0059490:intron |
| CAACCATGATAATGAGATTG+AGG | 0.430486 | 1_2:-16294820 | None:intergenic |
| CTCAATCTCATTATCATGGT+TGG | 0.430712 | 1_2:+16294821 | Msa0059490:CDS |
| CAAAAGGACTACCAAATGTA+TGG | 0.442461 | 1_2:+16294633 | None:intergenic |
| ACAATTTGGTGCAGAATACA+AGG | 0.496774 | 1_2:-16294728 | None:intergenic |
| GCATTTGAGGACGATATGGT+TGG | 0.513401 | 1_2:+16294699 | Msa0059490:CDS |
| AAACCTCAATCTCATTATCA+TGG | 0.529545 | 1_2:+16294817 | Msa0059490:CDS |
| ATAGGGCTTTAAAGCCAACT+AGG | 0.530383 | 1_2:+16295152 | Msa0059490:three_prime_UTR |
| TCTGCATAAGAGAACCTAGT+TGG | 0.547736 | 1_2:-16295166 | None:intergenic |
| AATGTATGGAGATGAGCAGC+AGG | 0.577317 | 1_2:+16294647 | Msa0059490:CDS |
| ACCGGAAAATAACGAATAAG+GGG | 0.603388 | 1_2:-16294765 | None:intergenic |
| TGAATGTATCTCACCTGCAG+AGG | 0.618845 | 1_2:-16294904 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGTTGAATTATTAATTTGT+AGG | + | chr1_2:16295013-16295032 | Msa0059490:intron | 15.0% |
| !!! | AAGAATTGAAAACTTTTTGA+AGG | + | chr1_2:16295126-16295145 | Msa0059490:three_prime_UTR | 20.0% |
| !!! | AAAACTTTTTGAAGGATTAT+AGG | + | chr1_2:16295134-16295153 | Msa0059490:three_prime_UTR | 20.0% |
| !!! | AAACTTTTTGAAGGATTATA+GGG | + | chr1_2:16295135-16295154 | Msa0059490:three_prime_UTR | 20.0% |
| ! | GATTTCTTGTCCAATTTATA+TGG | + | chr1_2:16294674-16294693 | Msa0059490:CDS | 25.0% |
| !!! | TTGGAAACAAATTTTGACAA+AGG | + | chr1_2:16294840-16294859 | Msa0059490:CDS | 25.0% |
| ! | TTCACTTCAATACTTTCATT+TGG | + | chr1_2:16294923-16294942 | Msa0059490:intron | 25.0% |
| !!! | ACTTTCATTTGGTTTGATTT+TGG | + | chr1_2:16294934-16294953 | Msa0059490:intron | 25.0% |
| !!! | CTTTCATTTGGTTTGATTTT+GGG | + | chr1_2:16294935-16294954 | Msa0059490:intron | 25.0% |
| !!! | TTTCATTTGGTTTGATTTTG+GGG | + | chr1_2:16294936-16294955 | Msa0059490:intron | 25.0% |
| !!! | TATGTAGCTGTGATTTTTTA+AGG | + | chr1_2:16294990-16295009 | Msa0059490:intron | 25.0% |
| TCAAATGCTGCCATATAAAT+TGG | - | chr1_2:16294687-16294706 | None:intergenic | 30.0% | |
| AATTTATATGGCAGCATTTG+AGG | + | chr1_2:16294686-16294705 | Msa0059490:CDS | 30.0% | |
| TAAAACTCGTTGAGACAATT+TGG | - | chr1_2:16294745-16294764 | None:intergenic | 30.0% | |
| TACCGGAAAATAACGAATAA+GGG | - | chr1_2:16294769-16294788 | None:intergenic | 30.0% | |
| TTTCCGGTAGAATCTTATAA+TGG | + | chr1_2:16294780-16294799 | Msa0059490:intron | 30.0% | |
| TTCCGGTAGAATCTTATAAT+GGG | + | chr1_2:16294781-16294800 | Msa0059490:intron | 30.0% | |
| AAACCTCAATCTCATTATCA+TGG | + | chr1_2:16294817-16294836 | Msa0059490:CDS | 30.0% | |
| !! | AAGATTATTTTATCCTCTGC+AGG | + | chr1_2:16294891-16294910 | Msa0059490:CDS | 30.0% |
| ! | TAATTTGTAGGTGCAATCAT+TGG | + | chr1_2:16295025-16295044 | Msa0059490:intron | 30.0% |
| !! | ACAATTTGGTGCAGAATACA+AGG | - | chr1_2:16294731-16294750 | None:intergenic | 35.0% |
| !! | ACCCCTTATTCGTTATTTTC+CGG | + | chr1_2:16294764-16294783 | Msa0059490:CDS | 35.0% |
| ACCGGAAAATAACGAATAAG+GGG | - | chr1_2:16294768-16294787 | None:intergenic | 35.0% | |
| CTACCGGAAAATAACGAATA+AGG | - | chr1_2:16294770-16294789 | None:intergenic | 35.0% | |
| AGCCCATTATAAGATTCTAC+CGG | - | chr1_2:16294786-16294805 | None:intergenic | 35.0% | |
| ! | CAACCATGATAATGAGATTG+AGG | - | chr1_2:16294823-16294842 | None:intergenic | 35.0% |
| CTCAATCTCATTATCATGGT+TGG | + | chr1_2:16294821-16294840 | Msa0059490:CDS | 35.0% | |
| !!! | ATTTGGTTTGATTTTGGGGT+TGG | + | chr1_2:16294940-16294959 | Msa0059490:intron | 35.0% |
| ACTGTGCTTGTTCTTGTATT+TGG | + | chr1_2:16295052-16295071 | Msa0059490:CDS | 35.0% | |
| !! | ATAGGGCTTTAAAGCCAACT+AGG | + | chr1_2:16295152-16295171 | Msa0059490:three_prime_UTR | 40.0% |
| TCTGCATAAGAGAACCTAGT+TGG | - | chr1_2:16295169-16295188 | None:intergenic | 40.0% | |
| GCTGCTCATCTCCATACATT+TGG | - | chr1_2:16294647-16294666 | None:intergenic | 45.0% | |
| AATGTATGGAGATGAGCAGC+AGG | + | chr1_2:16294647-16294666 | Msa0059490:CDS | 45.0% | |
| GCATTTGAGGACGATATGGT+TGG | + | chr1_2:16294699-16294718 | Msa0059490:CDS | 45.0% | |
| TGAATGTATCTCACCTGCAG+AGG | - | chr1_2:16294907-16294926 | None:intergenic | 45.0% | |
| GGCAGCATTTGAGGACGATA+TGG | + | chr1_2:16294695-16294714 | Msa0059490:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 16294639 | 16295197 | 16294639 | ID=Msa0059490;Name=Msa0059490 |
| chr1_2 | mRNA | 16294639 | 16295197 | 16294639 | ID=Msa0059490-mRNA-1;Parent=Msa0059490;Name=Msa0059490-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0|0.5|0.33|1|0.5|0|3|88|114 |
| chr1_2 | exon | 16294639 | 16294785 | 16294639 | ID=Msa0059490-mRNA-1:exon:6572;Parent=Msa0059490-mRNA-1 |
| chr1_2 | exon | 16294790 | 16294912 | 16294790 | ID=Msa0059490-mRNA-1:exon:6573;Parent=Msa0059490-mRNA-1 |
| chr1_2 | exon | 16295035 | 16295197 | 16295035 | ID=Msa0059490-mRNA-1:exon:6574;Parent=Msa0059490-mRNA-1 |
| chr1_2 | CDS | 16294639 | 16294785 | 16294639 | ID=Msa0059490-mRNA-1:cds;Parent=Msa0059490-mRNA-1 |
| chr1_2 | CDS | 16294790 | 16294912 | 16294790 | ID=Msa0059490-mRNA-1:cds;Parent=Msa0059490-mRNA-1 |
| chr1_2 | CDS | 16295035 | 16295109 | 16295035 | ID=Msa0059490-mRNA-1:cds;Parent=Msa0059490-mRNA-1 |
| chr1_2 | three_prime_UTR | 16295110 | 16295197 | 16295110 | ID=Msa0059490-mRNA-1:three_prime_utr;Parent=Msa0059490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
