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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1408090 | RHN59397.1 | 94.118 | 119 | 7 | 0 | 1 | 119 | 22 | 140 | 3.26e-74 | 226 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1408090 | A0A396I963 | 94.118 | 119 | 7 | 0 | 1 | 119 | 22 | 140 | 1.56e-74 | 226 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0527790 | Msa1408090 | 0.887497 | 1.355248e-72 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1408090 | MtrunA17_Chr4g0012851 | 94.118 | 119 | 7 | 0 | 1 | 119 | 22 | 140 | 3.00e-78 | 226 |
| Msa1408090 | MtrunA17_Chr7g0244911 | 48.780 | 123 | 53 | 5 | 4 | 119 | 1 | 120 | 2.83e-23 | 87.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATCAGAACCAAGATTTCTA+AGG | 0.315908 | tig0023361:+47970 | Msa1408090:CDS |
| AAATTCTTCAAACCATTTCT+TGG | 0.318829 | tig0023361:+48104 | Msa1408090:CDS |
| GACACTGACCTTAGAAATCT+TGG | 0.321072 | tig0023361:-47978 | None:intergenic |
| GCAATGATTCGAAAGAGATT+TGG | 0.327865 | tig0023361:+47864 | Msa1408090:CDS |
| TCAGAATCCACTCTCTTTCA+AGG | 0.337545 | tig0023361:+48163 | Msa1408090:CDS |
| GGAAGACGTTGTCGCGGTTC+CGG | 0.343136 | tig0023361:+48062 | Msa1408090:CDS |
| CTTAAACACCTTTCGAAAAC+CGG | 0.347709 | tig0023361:-48081 | None:intergenic |
| CAAAGGATAGCCTCTCAAAT+TGG | 0.423678 | tig0023361:-47911 | None:intergenic |
| TGAGTGACAAGAGGAACTGC+TGG | 0.485543 | tig0023361:-48026 | None:intergenic |
| AGCAGTTCCTCTTGTCACTC+AGG | 0.488848 | tig0023361:+48028 | Msa1408090:CDS |
| TTTGTTGAGTTGAGACTCAA+AGG | 0.523465 | tig0023361:-47928 | None:intergenic |
| TGATAAGCTTCTTGATAACA+TGG | 0.525013 | tig0023361:-47952 | None:intergenic |
| CTAAATGCCTTGAAAGAGAG+TGG | 0.545008 | tig0023361:-48170 | None:intergenic |
| GTCACTCAGGAGGCGAAGCA+AGG | 0.560619 | tig0023361:+48041 | Msa1408090:CDS |
| AGGCATTTAGTAGATCATTG+AGG | 0.589944 | tig0023361:+48183 | Msa1408090:CDS |
| TTCGCCTCCTGAGTGACAAG+AGG | 0.607306 | tig0023361:-48035 | None:intergenic |
| ATTTGTTAGACCAATTTGAG+AGG | 0.623039 | tig0023361:+47901 | Msa1408090:CDS |
| AGTTCCTCTTGTCACTCAGG+AGG | 0.660481 | tig0023361:+48031 | Msa1408090:CDS |
| AAGCAAGGAAGACGTTGTCG+CGG | 0.700615 | tig0023361:+48056 | Msa1408090:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAATTCTTCAAACCATTTCT+TGG | + | tig0023361:48104-48123 | Msa1408090:CDS | 25.0% |
| ! | ATTTGTTAGACCAATTTGAG+AGG | + | tig0023361:47901-47920 | Msa1408090:CDS | 30.0% |
| ! | TGATAAGCTTCTTGATAACA+TGG | - | tig0023361:47955-47974 | None:intergenic | 30.0% |
| TATCAGAACCAAGATTTCTA+AGG | + | tig0023361:47970-47989 | Msa1408090:CDS | 30.0% | |
| !!! | CCATTTTTTCTACCAAGAAA+TGG | - | tig0023361:48119-48138 | None:intergenic | 30.0% |
| CCATTTCTTGGTAGAAAAAA+TGG | + | tig0023361:48116-48135 | Msa1408090:CDS | 30.0% | |
| GCAATGATTCGAAAGAGATT+TGG | + | tig0023361:47864-47883 | Msa1408090:CDS | 35.0% | |
| !! | TTTGTTGAGTTGAGACTCAA+AGG | - | tig0023361:47931-47950 | None:intergenic | 35.0% |
| CTTAAACACCTTTCGAAAAC+CGG | - | tig0023361:48084-48103 | None:intergenic | 35.0% | |
| TTGGTAGAAAAAATGGAGCA+AGG | + | tig0023361:48123-48142 | Msa1408090:CDS | 35.0% | |
| AGGCATTTAGTAGATCATTG+AGG | + | tig0023361:48183-48202 | Msa1408090:CDS | 35.0% | |
| CAAAGGATAGCCTCTCAAAT+TGG | - | tig0023361:47914-47933 | None:intergenic | 40.0% | |
| GACACTGACCTTAGAAATCT+TGG | - | tig0023361:47981-48000 | None:intergenic | 40.0% | |
| TCAGAATCCACTCTCTTTCA+AGG | + | tig0023361:48163-48182 | Msa1408090:CDS | 40.0% | |
| CTAAATGCCTTGAAAGAGAG+TGG | - | tig0023361:48173-48192 | None:intergenic | 40.0% | |
| TGAGTGACAAGAGGAACTGC+TGG | - | tig0023361:48029-48048 | None:intergenic | 50.0% | |
| AGCAGTTCCTCTTGTCACTC+AGG | + | tig0023361:48028-48047 | Msa1408090:CDS | 50.0% | |
| AGTTCCTCTTGTCACTCAGG+AGG | + | tig0023361:48031-48050 | Msa1408090:CDS | 50.0% | |
| AAGCAAGGAAGACGTTGTCG+CGG | + | tig0023361:48056-48075 | Msa1408090:CDS | 50.0% | |
| TTCGCCTCCTGAGTGACAAG+AGG | - | tig0023361:48038-48057 | None:intergenic | 55.0% | |
| ! | TCGCGGTTCCGGTTTTCGAA+AGG | + | tig0023361:48073-48092 | Msa1408090:CDS | 55.0% |
| GTCACTCAGGAGGCGAAGCA+AGG | + | tig0023361:48041-48060 | Msa1408090:CDS | 60.0% | |
| GGAAGACGTTGTCGCGGTTC+CGG | + | tig0023361:48062-48081 | Msa1408090:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0023361 | gene | 47852 | 48211 | 47852 | ID=Msa1408090;Name=Msa1408090 |
| tig0023361 | mRNA | 47852 | 48211 | 47852 | ID=Msa1408090-mRNA-1;Parent=Msa1408090;Name=Msa1408090-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|-1|0|1|-1|1|1|0|119 |
| tig0023361 | exon | 47852 | 48211 | 47852 | ID=Msa1408090-mRNA-1:exon:25460;Parent=Msa1408090-mRNA-1 |
| tig0023361 | CDS | 47852 | 48211 | 47852 | ID=Msa1408090-mRNA-1:cds;Parent=Msa1408090-mRNA-1 |
| Gene Sequence |
| Protein sequence |
