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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0265540 | XP_003597617.2 | 51.282 | 156 | 62 | 3 | 2 | 145 | 77 | 230 | 2.51e-37 | 137 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0265540 | G7IUJ6 | 51.282 | 156 | 62 | 3 | 2 | 145 | 77 | 230 | 1.20e-37 | 137 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0265540 | Msa0303390 | 0.878037 | 3.881736e-69 | -8.615850e-47 |
| Msa0265540 | Msa1089000 | 0.839335 | 1.684786e-57 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0265540 | MtrunA17_Chr2g0330381 | 55.385 | 130 | 49 | 2 | 23 | 145 | 1 | 128 | 6.36e-40 | 130 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 32 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTGCCTTGTTTATGTCTCTC+TGG | 0.303301 | 2_2:+65890069 | Msa0265540:CDS |
| AGACTGTAGTATTAAGCTTT+GGG | 0.340844 | 2_2:+65889829 | Msa0265540:CDS |
| GAGACTGTAGTATTAAGCTT+TGG | 0.349162 | 2_2:+65889828 | Msa0265540:CDS |
| GCCATTCTTGTGCCCATTCT+CGG | 0.356932 | 2_2:+65889954 | Msa0265540:CDS |
| AGTTCAATTGATTAAGTCTT+GGG | 0.382570 | 2_2:+65889932 | Msa0265540:CDS |
| AGACTTAATCAATTGAACTA+TGG | 0.404193 | 2_2:-65889928 | None:intergenic |
| AAGACATAATATTCCGAGAA+TGG | 0.426120 | 2_2:-65889967 | None:intergenic |
| TACTACTCCTTTAGCATCAA+TGG | 0.437086 | 2_2:+65890047 | Msa0265540:CDS |
| TTGTTTATGTCTCTCTGGGC+TGG | 0.456996 | 2_2:+65890074 | Msa0265540:CDS |
| TGCCGGTAAGAGCTGAAAAC+AGG | 0.458688 | 2_2:-65889856 | None:intergenic |
| AAGACATTCCACAAAATTGC+CGG | 0.462640 | 2_2:-65889873 | None:intergenic |
| TGCCTTGTTTATGTCTCTCT+GGG | 0.463331 | 2_2:+65890070 | Msa0265540:CDS |
| GGAGAAGTCAGAGACAATAA+TGG | 0.475298 | 2_2:+65890134 | Msa0265540:CDS |
| TGTGGCACAGCAAGGAACTT+TGG | 0.476177 | 2_2:+65889733 | Msa0265540:CDS |
| TCCGAGAATGGGCACAAGAA+TGG | 0.486207 | 2_2:-65889955 | None:intergenic |
| TAGTTCAATTGATTAAGTCT+TGG | 0.492347 | 2_2:+65889931 | Msa0265540:CDS |
| CAAGGAACTTTGGCAGGCGG+CGG | 0.493243 | 2_2:+65889743 | Msa0265540:CDS |
| GCACAGCAAGGAACTTTGGC+AGG | 0.494065 | 2_2:+65889737 | Msa0265540:CDS |
| AGACATAATATTCCGAGAAT+GGG | 0.507948 | 2_2:-65889966 | None:intergenic |
| GTGGCTGATTAAAGCATCAA+TGG | 0.521228 | 2_2:+65890013 | Msa0265540:CDS |
| TTGCCTATGGCTTATTCAAG+TGG | 0.541978 | 2_2:+65889994 | Msa0265540:CDS |
| CAAGGCACCATTGATGCTAA+AGG | 0.542963 | 2_2:-65890054 | None:intergenic |
| GACTGTAGTATTAAGCTTTG+GGG | 0.549905 | 2_2:+65889830 | Msa0265540:CDS |
| CAGCCACTTGAATAAGCCAT+AGG | 0.579796 | 2_2:-65889997 | None:intergenic |
| CAGCAAGGAACTTTGGCAGG+CGG | 0.603191 | 2_2:+65889740 | Msa0265540:CDS |
| TTGCGTAGACAAAGGTCACT+AGG | 0.620397 | 2_2:-65889899 | None:intergenic |
| CATCAGTGTAAATTGAGCGA+GGG | 0.629777 | 2_2:-65889778 | None:intergenic |
| ACATCAGTGTAAATTGAGCG+AGG | 0.636027 | 2_2:-65889779 | None:intergenic |
| GAAGTCAGAGACAATAATGG+AGG | 0.638749 | 2_2:+65890137 | Msa0265540:CDS |
| GGAGACAATTGCGTAGACAA+AGG | 0.646928 | 2_2:-65889907 | None:intergenic |
| TGTAGTATTAAGCTTTGGGG+AGG | 0.656213 | 2_2:+65889833 | Msa0265540:CDS |
| AGCCCAGAGAGACATAAACA+AGG | 0.708930 | 2_2:-65890072 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AGACTTAATCAATTGAACTA+TGG | - | chr2_2:65889931-65889950 | None:intergenic | 25.0% |
| ! | TAGTTCAATTGATTAAGTCT+TGG | + | chr2_2:65889931-65889950 | Msa0265540:CDS | 25.0% |
| ! | AGTTCAATTGATTAAGTCTT+GGG | + | chr2_2:65889932-65889951 | Msa0265540:CDS | 25.0% |
| !! | TTATGTCTTAATTTTGCCTA+TGG | + | chr2_2:65889981-65890000 | Msa0265540:CDS | 25.0% |
| ! | ACTACAGTCTCTTTTTGATA+AGG | - | chr2_2:65889819-65889838 | None:intergenic | 30.0% |
| AGACTGTAGTATTAAGCTTT+GGG | + | chr2_2:65889829-65889848 | Msa0265540:CDS | 30.0% | |
| AGACATAATATTCCGAGAAT+GGG | - | chr2_2:65889969-65889988 | None:intergenic | 30.0% | |
| AAGACATAATATTCCGAGAA+TGG | - | chr2_2:65889970-65889989 | None:intergenic | 30.0% | |
| GAGACTGTAGTATTAAGCTT+TGG | + | chr2_2:65889828-65889847 | Msa0265540:CDS | 35.0% | |
| GACTGTAGTATTAAGCTTTG+GGG | + | chr2_2:65889830-65889849 | Msa0265540:CDS | 35.0% | |
| AAGACATTCCACAAAATTGC+CGG | - | chr2_2:65889876-65889895 | None:intergenic | 35.0% | |
| TACTACTCCTTTAGCATCAA+TGG | + | chr2_2:65890047-65890066 | Msa0265540:CDS | 35.0% | |
| CATCAGTGTAAATTGAGCGA+GGG | - | chr2_2:65889781-65889800 | None:intergenic | 40.0% | |
| ACATCAGTGTAAATTGAGCG+AGG | - | chr2_2:65889782-65889801 | None:intergenic | 40.0% | |
| !! | TGTAGTATTAAGCTTTGGGG+AGG | + | chr2_2:65889833-65889852 | Msa0265540:CDS | 40.0% |
| TTGCCTATGGCTTATTCAAG+TGG | + | chr2_2:65889994-65890013 | Msa0265540:CDS | 40.0% | |
| ! | GTGGCTGATTAAAGCATCAA+TGG | + | chr2_2:65890013-65890032 | Msa0265540:CDS | 40.0% |
| !! | TGCCTTGTTTATGTCTCTCT+GGG | + | chr2_2:65890070-65890089 | Msa0265540:CDS | 40.0% |
| !!! | ATGCTTGTGCTTTTTCTTGC+TGG | + | chr2_2:65890113-65890132 | Msa0265540:CDS | 40.0% |
| GGAGAAGTCAGAGACAATAA+TGG | + | chr2_2:65890134-65890153 | Msa0265540:CDS | 40.0% | |
| GAAGTCAGAGACAATAATGG+AGG | + | chr2_2:65890137-65890156 | Msa0265540:CDS | 40.0% | |
| ! | AGCTCTTACCGGCAATTTTG+TGG | + | chr2_2:65889865-65889884 | Msa0265540:CDS | 45.0% |
| TTGCGTAGACAAAGGTCACT+AGG | - | chr2_2:65889902-65889921 | None:intergenic | 45.0% | |
| GGAGACAATTGCGTAGACAA+AGG | - | chr2_2:65889910-65889929 | None:intergenic | 45.0% | |
| CAGCCACTTGAATAAGCCAT+AGG | - | chr2_2:65890000-65890019 | None:intergenic | 45.0% | |
| ! | CAAGGCACCATTGATGCTAA+AGG | - | chr2_2:65890057-65890076 | None:intergenic | 45.0% |
| !! | GTGCCTTGTTTATGTCTCTC+TGG | + | chr2_2:65890069-65890088 | Msa0265540:CDS | 45.0% |
| AGCCCAGAGAGACATAAACA+AGG | - | chr2_2:65890075-65890094 | None:intergenic | 45.0% | |
| TTGTTTATGTCTCTCTGGGC+TGG | + | chr2_2:65890074-65890093 | Msa0265540:CDS | 45.0% | |
| TGTGGCACAGCAAGGAACTT+TGG | + | chr2_2:65889733-65889752 | Msa0265540:CDS | 50.0% | |
| ! | GGCCTGTTTTCAGCTCTTAC+CGG | + | chr2_2:65889854-65889873 | Msa0265540:CDS | 50.0% |
| TGCCGGTAAGAGCTGAAAAC+AGG | - | chr2_2:65889859-65889878 | None:intergenic | 50.0% | |
| GCCATTCTTGTGCCCATTCT+CGG | + | chr2_2:65889954-65889973 | Msa0265540:CDS | 50.0% | |
| TCCGAGAATGGGCACAAGAA+TGG | - | chr2_2:65889958-65889977 | None:intergenic | 50.0% | |
| GCACAGCAAGGAACTTTGGC+AGG | + | chr2_2:65889737-65889756 | Msa0265540:CDS | 55.0% | |
| CAGCAAGGAACTTTGGCAGG+CGG | + | chr2_2:65889740-65889759 | Msa0265540:CDS | 55.0% | |
| CAAGGAACTTTGGCAGGCGG+CGG | + | chr2_2:65889743-65889762 | Msa0265540:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 65889732 | 65890169 | 65889732 | ID=Msa0265540;Name=Msa0265540 |
| chr2_2 | mRNA | 65889732 | 65890169 | 65889732 | ID=Msa0265540-mRNA-1;Parent=Msa0265540;Name=Msa0265540-mRNA-1;_AED=0.36;_eAED=0.36;_QI=0|-1|0|1|-1|1|1|0|145 |
| chr2_2 | exon | 65889732 | 65890169 | 65889732 | ID=Msa0265540-mRNA-1:exon:20810;Parent=Msa0265540-mRNA-1 |
| chr2_2 | CDS | 65889732 | 65890169 | 65889732 | ID=Msa0265540-mRNA-1:cds;Parent=Msa0265540-mRNA-1 |
| Gene Sequence |
| Protein sequence |
