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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0382740 | XP_003603428.2 | 97.076 | 171 | 4 | 1 | 1 | 171 | 1 | 170 | 2.37e-104 | 306 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0003080 | Msa0382740 | 0.819818 | 9.513196e-53 | -8.615850e-47 |
| Msa0025580 | Msa0382740 | 0.838734 | 2.412140e-57 | -8.615850e-47 |
| Msa0029960 | Msa0382740 | 0.829634 | 4.612691e-55 | -8.615850e-47 |
| Msa0032970 | Msa0382740 | 0.808997 | 2.351843e-50 | -8.615850e-47 |
| Msa0032980 | Msa0382740 | 0.815607 | 8.476627e-52 | -8.615850e-47 |
| Msa0033780 | Msa0382740 | 0.824855 | 6.439142e-54 | -8.615850e-47 |
| Msa0050660 | Msa0382740 | 0.825897 | 3.647634e-54 | -8.615850e-47 |
| Msa0050700 | Msa0382740 | 0.824434 | 8.088788e-54 | -8.615850e-47 |
| Msa0050790 | Msa0382740 | 0.812696 | 3.722752e-51 | -8.615850e-47 |
| Msa0057540 | Msa0382740 | 0.817678 | 2.912035e-52 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0382740 | MtrunA17_Chr3g0138031 | 97.076 | 171 | 4 | 1 | 1 | 171 | 1 | 170 | 2.18e-108 | 306 |
| Msa0382740 | MtrunA17_Chr4g0003701 | 61.111 | 162 | 47 | 4 | 1 | 162 | 1 | 146 | 1.64e-55 | 172 |
| Msa0382740 | MtrunA17_Chr4g0063351 | 43.030 | 165 | 51 | 6 | 5 | 161 | 6 | 135 | 3.60e-33 | 114 |
| Msa0382740 | MtrunA17_Chr2g0306881 | 36.943 | 157 | 58 | 3 | 5 | 160 | 6 | 122 | 6.33e-31 | 108 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0382740 | AT3G15680.2 | 60.819 | 171 | 58 | 5 | 1 | 169 | 1 | 164 | 4.49e-61 | 187 |
| Msa0382740 | AT3G15680.1 | 60.819 | 171 | 58 | 5 | 1 | 169 | 1 | 164 | 4.49e-61 | 187 |
| Msa0382740 | AT5G25490.2 | 62.791 | 172 | 50 | 5 | 1 | 164 | 1 | 166 | 1.43e-55 | 173 |
| Msa0382740 | AT5G25490.1 | 62.791 | 172 | 50 | 5 | 1 | 164 | 1 | 166 | 1.43e-55 | 173 |
| Msa0382740 | AT2G26695.1 | 40.764 | 157 | 65 | 5 | 5 | 161 | 6 | 134 | 2.05e-32 | 113 |
| Msa0382740 | AT2G26695.2 | 40.764 | 157 | 65 | 5 | 5 | 161 | 6 | 134 | 2.05e-32 | 113 |
| Msa0382740 | AT2G17975.1 | 30.769 | 169 | 80 | 6 | 3 | 157 | 5 | 150 | 4.69e-16 | 73.9 |
Find 86 sgRNAs with CRISPR-Local
Find 236 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGGAGCCACCAAAATCAA+CGG | 0.591777 | 3_1:+85494486 | None:intergenic |
| AAGAGTAATTGAGATTAAGG+TGG | 0.559698 | 3_1:+85494835 | None:intergenic |
| ACAGTACAATACCAGTCACC+AGG | 0.642353 | 3_1:+85494406 | None:intergenic |
| ACATCAGGGCCGGTGGTGAA+AGG | 0.548866 | 3_1:+85494433 | None:intergenic |
| ACCAGGACGGACATCAGGGC+CGG | 0.576233 | 3_1:+85494423 | None:intergenic |
| ACCGGCCCTGATGTCCGTCC+TGG | 0.532481 | 3_1:-85494424 | Msa0382740:CDS |
| ACTACCTTCCAAACTAAGTG+AGG | 0.639319 | 3_1:-85494741 | Msa0382740:intron |
| ACTCGCCCCGGCTGGAAATC+CGG | 0.405258 | 3_1:-85494223 | Msa0382740:CDS |
| AGAAGGTATCAATATCCTTA+GGG | 0.509984 | 3_1:+85494326 | None:intergenic |
| AGAATCTTGCCAACGATGTG+GGG | 0.604150 | 3_1:-85494539 | Msa0382740:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAGAGTAATTGAGATTAAGG+TGG | + | chr3_1:85493388-85493407 | None:intergenic | 30.0% | |
| GAGAAGAGTAATTGAGATTA+AGG | + | chr3_1:85493391-85493410 | None:intergenic | 30.0% | |
| TTTACTTACCTCACTTAGTT+TGG | + | chr3_1:85493490-85493509 | None:intergenic | 30.0% | |
| ACATGACACTTATAATGAGA+CGG | + | chr3_1:85494125-85494144 | None:intergenic | 30.0% | |
| TTGAGAAGTTCACGATAAAT+AGG | + | chr3_1:85494424-85494443 | None:intergenic | 30.0% | |
| AAGAGTAATTGAGATTAAGG+TGG | + | chr3_1:85493388-85493407 | None:intergenic | 30.0% | |
| GAGAAGAGTAATTGAGATTA+AGG | + | chr3_1:85493391-85493410 | None:intergenic | 30.0% | |
| TTTACTTACCTCACTTAGTT+TGG | + | chr3_1:85493490-85493509 | None:intergenic | 30.0% | |
| ACATGACACTTATAATGAGA+CGG | + | chr3_1:85494125-85494144 | None:intergenic | 30.0% | |
| TTGAGAAGTTCACGATAAAT+AGG | + | chr3_1:85494424-85494443 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 85493365 | 85494877 | 85493365 | ID=Msa0382740;Name=Msa0382740 |
| chr3_1 | mRNA | 85493365 | 85494877 | 85493365 | ID=Msa0382740-mRNA-1;Parent=Msa0382740;Name=Msa0382740-mRNA-1;_AED=0.12;_eAED=0.12;_QI=150|1|1|1|0.33|0.25|4|283|171 |
| chr3_1 | exon | 85493365 | 85493634 | 85493365 | ID=Msa0382740-mRNA-1:exon:22446;Parent=Msa0382740-mRNA-1 |
| chr3_1 | exon | 85493795 | 85493907 | 85493795 | ID=Msa0382740-mRNA-1:exon:22445;Parent=Msa0382740-mRNA-1 |
| chr3_1 | exon | 85494205 | 85494634 | 85494205 | ID=Msa0382740-mRNA-1:exon:22444;Parent=Msa0382740-mRNA-1 |
| chr3_1 | exon | 85494742 | 85494877 | 85494742 | ID=Msa0382740-mRNA-1:exon:22443;Parent=Msa0382740-mRNA-1 |
| chr3_1 | five_prime_UTR | 85494742 | 85494877 | 85494742 | ID=Msa0382740-mRNA-1:five_prime_utr;Parent=Msa0382740-mRNA-1 |
| chr3_1 | five_prime_UTR | 85494621 | 85494634 | 85494621 | ID=Msa0382740-mRNA-1:five_prime_utr;Parent=Msa0382740-mRNA-1 |
| chr3_1 | CDS | 85494205 | 85494620 | 85494205 | ID=Msa0382740-mRNA-1:cds;Parent=Msa0382740-mRNA-1 |
| chr3_1 | CDS | 85493808 | 85493907 | 85493808 | ID=Msa0382740-mRNA-1:cds;Parent=Msa0382740-mRNA-1 |
| chr3_1 | three_prime_UTR | 85493795 | 85493807 | 85493795 | ID=Msa0382740-mRNA-1:three_prime_utr;Parent=Msa0382740-mRNA-1 |
| chr3_1 | three_prime_UTR | 85493365 | 85493634 | 85493365 | ID=Msa0382740-mRNA-1:three_prime_utr;Parent=Msa0382740-mRNA-1 |
| Gene Sequence |
>Msa0382740 ATGAGCAGACCAGGAGATTGGAACTGCAGGACATGCAACCACCTCAACTTTCAAAGAAGAGAATCTTGCCAACGATGTGGGGAGTCAAGAATGATTTCTGGCGGCGGCGGCGCCGTTGATTTTGGTGGCTCCTTTCTTGGTGGAAGAGGCTCTAGCTCCCCTTTTCCTTTCACCACCGGCCCTGATGTCCGTCCTGGTGACTGGTATTGTACTGTTGGAAACTGTGGAGCTCACAACTTTGCCAGCCGCTCCAGCTGCTTCAAATGTGGTGCCCCTAAGGATATTGATACCTTCTCCTCTGACTCCTCAGACATGCCACGATTATTGAGATCACCATACGGTTTTGGAGGAGGCAGCGCCGGTGGTGGTGCCTCCACTCGCCCCGGCTGGAAATCCGGTGACTGGATATGCACCAGGTCTGGGTGTAACGAGCATAACTTCGCCAATAGAATGGAATGCTACCGATGCAACGGTCCAAGGGAATCTAGTACTGGAAGATCTTCCTATTTATCGTGA |
| Protein sequence |
>Msa0382740 MSRPGDWNCRTCNHLNFQRRESCQRCGESRMISGGGGAVDFGGSFLGGRGSSSPFPFTTGPDVRPGDWYCTVGNCGAHNFASRSSCFKCGAPKDIDTFSSDSSDMPRLLRSPYGFGGGSAGGGASTRPGWKSGDWICTRSGCNEHNFANRMECYRCNGPRESSTGRSSYLS* |
