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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0306980 | XP_003610783.1 | 90.566 | 53 | 5 | 0 | 2 | 54 | 24 | 76 | 1.69e-24 | 98.6 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0306980 | G7K522 | 90.566 | 53 | 5 | 0 | 2 | 54 | 24 | 76 | 8.06e-25 | 98.6 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0306980 | Msa1123350 | 0.805406 | 1.355474e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0306980 | MtrunA17_Chr5g0395021 | 90.566 | 53 | 5 | 0 | 2 | 54 | 24 | 76 | 1.55e-28 | 98.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 17 sgRNAs with CRISPR-Local
Find 19 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGATGTTGAGCTCTATGCTT+TGG | 0.339133 | 2_3:+66317972 | Msa0306980:CDS |
| CAGAAGGTAGTTTGCAATAG+TGG | 0.373095 | 2_3:-66318132 | None:intergenic |
| GAAGAGAGGCTTCTTAGTCT+TGG | 0.409377 | 2_3:-66317789 | None:intergenic |
| GATGTTGAGCTCTATGCTTT+GGG | 0.462010 | 2_3:+66317973 | Msa0306980:CDS |
| AATTCAGAAACACTTGAAGC+TGG | 0.479335 | 2_3:+66317945 | Msa0306980:intron |
| TGAATACCTTAGCGAGATTG+AGG | 0.487915 | 2_3:-66317817 | None:intergenic |
| ATGAAGAATGTGAAGATCAA+TGG | 0.502380 | 2_3:+66317722 | Msa0306980:CDS |
| TCAGAGATGAGTATGATAGT+TGG | 0.532402 | 2_3:-66318004 | None:intergenic |
| GCCTTCCTTTGTATCAACAG+TGG | 0.538665 | 2_3:-66318074 | None:intergenic |
| GTCATCCACTGTTGATACAA+AGG | 0.593976 | 2_3:+66318069 | Msa0306980:three_prime_UTR |
| CTGCTACCTCAATCTCGCTA+AGG | 0.595774 | 2_3:+66317811 | Msa0306980:CDS |
| TCCACTGTTGATACAAAGGA+AGG | 0.621515 | 2_3:+66318073 | Msa0306980:three_prime_UTR |
| AGATTGAGGTAGCAGAAGAG+AGG | 0.631106 | 2_3:-66317803 | None:intergenic |
| TGTCGTGGAACTCTAAAGTG+TGG | 0.638989 | 2_3:+66318103 | Msa0306980:three_prime_UTR |
| AAGGAAGGCAAAGAATGTCG+TGG | 0.649842 | 2_3:+66318088 | Msa0306980:three_prime_UTR |
| CGTGGAACTCTAAAGTGTGG+AGG | 0.661706 | 2_3:+66318106 | Msa0306980:three_prime_UTR |
| AAGAATGTGAAGATCAATGG+CGG | 0.680804 | 2_3:+66317725 | Msa0306980:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATGAAGAATGTGAAGATCAA+TGG | + | chr2_3:66317722-66317741 | Msa0306980:CDS | 30.0% | |
| AAGAATGTGAAGATCAATGG+CGG | + | chr2_3:66317725-66317744 | Msa0306980:CDS | 35.0% | |
| AATTCAGAAACACTTGAAGC+TGG | + | chr2_3:66317945-66317964 | Msa0306980:intron | 35.0% | |
| TCAGAGATGAGTATGATAGT+TGG | - | chr2_3:66318007-66318026 | None:intergenic | 35.0% | |
| !!! | CTCATCTCTGAGATTTTGAA+CGG | + | chr2_3:66318016-66318035 | Msa0306980:exon | 35.0% |
| TGAATACCTTAGCGAGATTG+AGG | - | chr2_3:66317820-66317839 | None:intergenic | 40.0% | |
| GATGTTGAGCTCTATGCTTT+GGG | + | chr2_3:66317973-66317992 | Msa0306980:CDS | 40.0% | |
| ! | AGATTTTGAACGGCAGTAGA+TGG | + | chr2_3:66318026-66318045 | Msa0306980:exon | 40.0% |
| ! | GATTTTGAACGGCAGTAGAT+GGG | + | chr2_3:66318027-66318046 | Msa0306980:three_prime_UTR | 40.0% |
| GTCATCCACTGTTGATACAA+AGG | + | chr2_3:66318069-66318088 | Msa0306980:three_prime_UTR | 40.0% | |
| TCCACTGTTGATACAAAGGA+AGG | + | chr2_3:66318073-66318092 | Msa0306980:three_prime_UTR | 40.0% | |
| GAAGAGAGGCTTCTTAGTCT+TGG | - | chr2_3:66317792-66317811 | None:intergenic | 45.0% | |
| AGATTGAGGTAGCAGAAGAG+AGG | - | chr2_3:66317806-66317825 | None:intergenic | 45.0% | |
| CGATGTTGAGCTCTATGCTT+TGG | + | chr2_3:66317972-66317991 | Msa0306980:CDS | 45.0% | |
| GCCTTCCTTTGTATCAACAG+TGG | - | chr2_3:66318077-66318096 | None:intergenic | 45.0% | |
| AAGGAAGGCAAAGAATGTCG+TGG | + | chr2_3:66318088-66318107 | Msa0306980:three_prime_UTR | 45.0% | |
| !! | TGTCGTGGAACTCTAAAGTG+TGG | + | chr2_3:66318103-66318122 | Msa0306980:three_prime_UTR | 45.0% |
| CTGCTACCTCAATCTCGCTA+AGG | + | chr2_3:66317811-66317830 | Msa0306980:CDS | 50.0% | |
| !! | CGTGGAACTCTAAAGTGTGG+AGG | + | chr2_3:66318106-66318125 | Msa0306980:three_prime_UTR | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 66317716 | 66318146 | 66317716 | ID=Msa0306980;Name=Msa0306980 |
| chr2_3 | mRNA | 66317716 | 66318146 | 66317716 | ID=Msa0306980-mRNA-1;Parent=Msa0306980;Name=Msa0306980-mRNA-1;_AED=0.15;_eAED=0.15;_QI=6|1|1|1|1|1|2|120|61 |
| chr2_3 | exon | 66317716 | 66317832 | 66317716 | ID=Msa0306980-mRNA-1:exon:22040;Parent=Msa0306980-mRNA-1 |
| chr2_3 | exon | 66317952 | 66318146 | 66317952 | ID=Msa0306980-mRNA-1:exon:22041;Parent=Msa0306980-mRNA-1 |
| chr2_3 | five_prime_UTR | 66317716 | 66317721 | 66317716 | ID=Msa0306980-mRNA-1:five_prime_utr;Parent=Msa0306980-mRNA-1 |
| chr2_3 | CDS | 66317722 | 66317832 | 66317722 | ID=Msa0306980-mRNA-1:cds;Parent=Msa0306980-mRNA-1 |
| chr2_3 | CDS | 66317952 | 66318026 | 66317952 | ID=Msa0306980-mRNA-1:cds;Parent=Msa0306980-mRNA-1 |
| chr2_3 | three_prime_UTR | 66318027 | 66318146 | 66318027 | ID=Msa0306980-mRNA-1:three_prime_utr;Parent=Msa0306980-mRNA-1 |
| Gene Sequence |
| Protein sequence |
