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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1356770 | XP_039690111.1 | 97.727 | 88 | 2 | 0 | 1 | 88 | 1 | 88 | 7.35e-56 | 177 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1356770 | G7KC08 | 97.727 | 88 | 2 | 0 | 1 | 88 | 1 | 88 | 3.51e-56 | 177 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0091570 | Msa1356770 | 0.802097 | 6.595175e-49 | -8.615850e-47 |
| Msa0115390 | Msa1356770 | 0.802176 | 6.352773e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1356770 | MtrunA17_Chr5g0397271 | 97.727 | 88 | 2 | 0 | 1 | 88 | 1 | 88 | 6.76e-60 | 177 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 29 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCACCACTTCCTCCTGTTAT+AGG | 0.246729 | tig0015859:-30864 | Msa1356770:CDS |
| TTGCATTACTATAGGTATAT+TGG | 0.263249 | tig0015859:-30976 | Msa1356770:intron |
| TCCTCCTGTTATAGGATCAT+TGG | 0.342440 | tig0015859:-30856 | Msa1356770:CDS |
| CCCTCTCGTTGTTGGATACA+TGG | 0.370228 | tig0015859:-30830 | Msa1356770:CDS |
| GGCCGGCTATAGGCGACTAT+TGG | 0.377649 | tig0015859:+30888 | Msa1356760:three_prime_UTR |
| ATTGGTTGCCCTCTCGTTGT+TGG | 0.399335 | tig0015859:-30838 | Msa1356770:CDS |
| AAGTGGTGGAGGCCGGCTAT+AGG | 0.418164 | tig0015859:+30878 | Msa1356760:three_prime_UTR |
| AAAGATGAATCTGGCGAGAT+GGG | 0.432844 | tig0015859:-30936 | Msa1356770:CDS |
| GCAACCAATGATCCTATAAC+AGG | 0.441435 | tig0015859:+30852 | Msa1356760:three_prime_UTR |
| GCCGGCTATAGGCGACTATT+GGG | 0.460498 | tig0015859:+30889 | Msa1356760:three_prime_UTR |
| GATCCATTCACTTGGTAGAC+CGG | 0.491216 | tig0015859:+31186 | Msa1356760:three_prime_UTR |
| AAGCCGGTCTACCAAGTGAA+TGG | 0.508284 | tig0015859:-31189 | Msa1356770:CDS |
| AAAAGATGAATCTGGCGAGA+TGG | 0.530203 | tig0015859:-30937 | Msa1356770:CDS |
| GATCCTATAACAGGAGGAAG+TGG | 0.536218 | tig0015859:+30861 | Msa1356760:three_prime_UTR |
| CAGGAGGAAGTGGTGGAGGC+CGG | 0.536906 | tig0015859:+30871 | Msa1356760:three_prime_UTR |
| ACCCAATAGTCGCCTATAGC+CGG | 0.547078 | tig0015859:-30890 | Msa1356770:CDS |
| CTACCAAGTGAATGGATCAC+AGG | 0.559874 | tig0015859:-31181 | Msa1356770:CDS |
| TGCTGTCCTCATCAGTGCTG+CGG | 0.577568 | tig0015859:+30802 | Msa1356760:three_prime_UTR |
| ATAACAGGAGGAAGTGGTGG+AGG | 0.586799 | tig0015859:+30867 | Msa1356760:three_prime_UTR |
| CCTATAACAGGAGGAAGTGG+TGG | 0.596015 | tig0015859:+30864 | Msa1356760:three_prime_UTR |
| GTGGAACCGCAGCACTGATG+AGG | 0.597213 | tig0015859:-30808 | Msa1356770:CDS |
| TACCCTGTGATCCATTCACT+TGG | 0.621091 | tig0015859:+31178 | Msa1356760:three_prime_UTR |
| AAGATGAATCTGGCGAGATG+GGG | 0.637726 | tig0015859:-30935 | Msa1356770:CDS |
| ACCAATGATCCTATAACAGG+AGG | 0.648824 | tig0015859:+30855 | Msa1356760:three_prime_UTR |
| ACCATGTATCCAACAACGAG+AGG | 0.650347 | tig0015859:+30829 | Msa1356760:three_prime_UTR |
| CCATGTATCCAACAACGAGA+GGG | 0.655825 | tig0015859:+30830 | Msa1356760:three_prime_UTR |
| CTATAGATAAAGTTCATGCG+TGG | 0.662656 | tig0015859:-31252 | None:intergenic |
| TACCAAGTGAATGGATCACA+GGG | 0.666568 | tig0015859:-31180 | Msa1356770:intron |
| TCTCGTTGTTGGATACATGG+TGG | 0.695822 | tig0015859:-30827 | Msa1356770:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGATATTTTGCATTACTAT+AGG | - | tig0015859:31050-31069 | Msa1356770:intron | 20.0% |
| ! | TTGCATTACTATAGGTATAT+TGG | - | tig0015859:31058-31077 | Msa1356770:intron | 25.0% |
| !!! | TCATCTTTTTCTTGTTTCTT+AGG | + | tig0015859:31086-31105 | Msa1356760:intron | 25.0% |
| ! | AAACAAGAAAAAGATGAATC+TGG | - | tig0015859:31089-31108 | Msa1356770:intron | 25.0% |
| TGCAAAAAACAGATTTAAGC+CGG | - | tig0015859:30829-30848 | Msa1356770:CDS | 30.0% | |
| !! | TAGTTTGAGTGTTGAACAAT+GGG | - | tig0015859:30967-30986 | Msa1356770:intron | 30.0% |
| !! | CTAGTTTGAGTGTTGAACAA+TGG | - | tig0015859:30966-30985 | Msa1356770:intron | 35.0% |
| TACCAAGTGAATGGATCACA+GGG | - | tig0015859:30854-30873 | Msa1356770:CDS | 40.0% | |
| AAAAGATGAATCTGGCGAGA+TGG | - | tig0015859:31097-31116 | Msa1356770:intron | 40.0% | |
| AAAGATGAATCTGGCGAGAT+GGG | - | tig0015859:31098-31117 | Msa1356770:intron | 40.0% | |
| TCCTCCTGTTATAGGATCAT+TGG | - | tig0015859:31178-31197 | Msa1356770:intron | 40.0% | |
| ACCAATGATCCTATAACAGG+AGG | + | tig0015859:31182-31201 | Msa1356760:three_prime_UTR | 40.0% | |
| GCAACCAATGATCCTATAAC+AGG | + | tig0015859:31185-31204 | Msa1356760:three_prime_UTR | 40.0% | |
| GATCCATTCACTTGGTAGAC+CGG | + | tig0015859:30851-30870 | Msa1356760:three_prime_UTR | 45.0% | |
| CTACCAAGTGAATGGATCAC+AGG | - | tig0015859:30853-30872 | Msa1356770:CDS | 45.0% | |
| TACCCTGTGATCCATTCACT+TGG | + | tig0015859:30859-30878 | Msa1356760:three_prime_UTR | 45.0% | |
| AAGATGAATCTGGCGAGATG+GGG | - | tig0015859:31099-31118 | Msa1356770:intron | 45.0% | |
| GATCCTATAACAGGAGGAAG+TGG | + | tig0015859:31176-31195 | Msa1356760:intron | 45.0% | |
| CCATGTATCCAACAACGAGA+GGG | + | tig0015859:31207-31226 | Msa1356760:three_prime_UTR | 45.0% | |
| ACCATGTATCCAACAACGAG+AGG | + | tig0015859:31208-31227 | Msa1356760:three_prime_UTR | 45.0% | |
| TCTCGTTGTTGGATACATGG+TGG | - | tig0015859:31207-31226 | Msa1356770:CDS | 45.0% | |
| AAGCCGGTCTACCAAGTGAA+TGG | - | tig0015859:30845-30864 | Msa1356770:CDS | 50.0% | |
| ACCCAATAGTCGCCTATAGC+CGG | - | tig0015859:31144-31163 | Msa1356770:intron | 50.0% | |
| ATAACAGGAGGAAGTGGTGG+AGG | + | tig0015859:31170-31189 | Msa1356760:intron | 50.0% | |
| CCTATAACAGGAGGAAGTGG+TGG | + | tig0015859:31173-31192 | Msa1356760:intron | 50.0% | |
| CCACCACTTCCTCCTGTTAT+AGG | - | tig0015859:31170-31189 | Msa1356770:intron | 50.0% | |
| ATTGGTTGCCCTCTCGTTGT+TGG | - | tig0015859:31196-31215 | Msa1356770:CDS | 50.0% | |
| CCCTCTCGTTGTTGGATACA+TGG | - | tig0015859:31204-31223 | Msa1356770:CDS | 50.0% | |
| GCCGGCTATAGGCGACTATT+GGG | + | tig0015859:31148-31167 | Msa1356760:intron | 55.0% | |
| TGCTGTCCTCATCAGTGCTG+CGG | + | tig0015859:31235-31254 | Msa1356760:three_prime_UTR | 55.0% | |
| GGCCGGCTATAGGCGACTAT+TGG | + | tig0015859:31149-31168 | Msa1356760:intron | 60.0% | |
| ! | AAGTGGTGGAGGCCGGCTAT+AGG | + | tig0015859:31159-31178 | Msa1356760:intron | 60.0% |
| !! | GTGGAACCGCAGCACTGATG+AGG | - | tig0015859:31226-31245 | Msa1356770:CDS | 60.0% |
| ! | CAGGAGGAAGTGGTGGAGGC+CGG | + | tig0015859:31166-31185 | Msa1356760:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0015859 | gene | 30797 | 31259 | 30797 | ID=Msa1356770;Name=Msa1356770 |
| tig0015859 | mRNA | 30797 | 31259 | 30797 | ID=Msa1356770-mRNA-1;Parent=Msa1356770;Name=Msa1356770-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0|0|0|1|1|1|2|0|88 |
| tig0015859 | exon | 31181 | 31259 | 31181 | ID=Msa1356770-mRNA-1:exon:10134;Parent=Msa1356770-mRNA-1 |
| tig0015859 | exon | 30797 | 30984 | 30797 | ID=Msa1356770-mRNA-1:exon:10133;Parent=Msa1356770-mRNA-1 |
| tig0015859 | CDS | 31181 | 31259 | 31181 | ID=Msa1356770-mRNA-1:cds;Parent=Msa1356770-mRNA-1 |
| tig0015859 | CDS | 30797 | 30984 | 30797 | ID=Msa1356770-mRNA-1:cds;Parent=Msa1356770-mRNA-1 |
| Gene Sequence |
| Protein sequence |
