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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0698620 | KEH31381.1 | 89.333 | 75 | 6 | 1 | 1 | 75 | 18 | 90 | 9.88e-38 | 131 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0698620 | A0A072UPW7 | 89.333 | 75 | 6 | 1 | 1 | 75 | 18 | 90 | 4.72e-38 | 131 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0615680 | Msa0698620 | 0.885608 | 7.022785e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0698620 | MtrunA17_Chr4g0052071 | 89.333 | 75 | 6 | 1 | 1 | 75 | 1 | 73 | 1.07e-41 | 130 |
| Msa0698620 | MtrunA17_Chr4g0052051 | 86.667 | 75 | 9 | 1 | 1 | 75 | 1 | 74 | 4.72e-40 | 126 |
| Msa0698620 | MtrunA17_Chr5g0443071 | 47.368 | 76 | 31 | 3 | 3 | 75 | 17 | 86 | 2.52e-16 | 66.6 |
| Msa0698620 | MtrunA17_Chr1g0152631 | 43.478 | 69 | 35 | 1 | 7 | 75 | 5 | 69 | 2.00e-12 | 56.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 14 sgRNAs with CRISPR-Local
Find 14 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TACTTTGCCTGTTTCATTCA+TGG | 0.294686 | 4_4:-68960718 | Msa0698620:CDS |
| TAAGGTTGTCTCTGCCTTTG+AGG | 0.398295 | 4_4:-68960682 | Msa0698620:CDS |
| ATATCCTCCATGAATGAAAC+AGG | 0.439443 | 4_4:+68960711 | None:intergenic |
| AAAACGGAATGTCAATGGTT+GGG | 0.511682 | 4_4:-68960836 | None:intergenic |
| AAGGGAAAACGGAATGTCAA+TGG | 0.524775 | 4_4:-68960841 | None:intergenic |
| GTTGTTGAAGAGGCTGAAGA+TGG | 0.526001 | 4_4:-68960802 | Msa0698620:CDS |
| GAAAACGGAATGTCAATGGT+TGG | 0.533110 | 4_4:-68960837 | None:intergenic |
| AACAAGAACAACAGCCTCAA+AGG | 0.541344 | 4_4:+68960668 | None:intergenic |
| AGAGAAGATCGTTGTTGAAG+AGG | 0.543554 | 4_4:-68960812 | Msa0698620:CDS |
| CATCATCATCAGTATTCAAG+TGG | 0.550675 | 4_4:-68960749 | Msa0698620:CDS |
| GGCTGAAGATGGAAGCATTG+AGG | 0.600381 | 4_4:-68960791 | Msa0698620:CDS |
| ACAAAGGTAAAAGAAACAGA+TGG | 0.641605 | 4_4:+68960641 | None:intergenic |
| AGAAGCTGCAACCACAACAA+AGG | 0.643314 | 4_4:+68960625 | None:intergenic |
| TTTGCCTGTTTCATTCATGG+AGG | 0.660420 | 4_4:-68960715 | Msa0698620:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CATGGAGGATATTGTTTTTA+AGG | - | chr4_4:68960751-68960770 | Msa0698620:CDS | 30.0% |
| ACAAAGGTAAAAGAAACAGA+TGG | + | chr4_4:68960813-68960832 | None:intergenic | 30.0% | |
| ! | TGTTTCTTTTACCTTTGTTG+TGG | - | chr4_4:68960815-68960834 | Msa0698620:CDS | 30.0% |
| ! | CATTGAGGTTGAAGTTTTTG+TGG | - | chr4_4:68960675-68960694 | Msa0698620:CDS | 35.0% |
| CATCATCATCAGTATTCAAG+TGG | - | chr4_4:68960702-68960721 | Msa0698620:CDS | 35.0% | |
| TACTTTGCCTGTTTCATTCA+TGG | - | chr4_4:68960733-68960752 | Msa0698620:CDS | 35.0% | |
| ATATCCTCCATGAATGAAAC+AGG | + | chr4_4:68960743-68960762 | None:intergenic | 35.0% | |
| AGAGAAGATCGTTGTTGAAG+AGG | - | chr4_4:68960639-68960658 | Msa0698620:CDS | 40.0% | |
| TTTGCCTGTTTCATTCATGG+AGG | - | chr4_4:68960736-68960755 | Msa0698620:CDS | 40.0% | |
| AACAAGAACAACAGCCTCAA+AGG | + | chr4_4:68960786-68960805 | None:intergenic | 40.0% | |
| GTTGTTGAAGAGGCTGAAGA+TGG | - | chr4_4:68960649-68960668 | Msa0698620:CDS | 45.0% | |
| TAAGGTTGTCTCTGCCTTTG+AGG | - | chr4_4:68960769-68960788 | Msa0698620:CDS | 45.0% | |
| AGAAGCTGCAACCACAACAA+AGG | + | chr4_4:68960829-68960848 | None:intergenic | 45.0% | |
| !! | GGCTGAAGATGGAAGCATTG+AGG | - | chr4_4:68960660-68960679 | Msa0698620:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 68960623 | 68960850 | 68960623 | ID=Msa0698620;Name=Msa0698620 |
| chr4_4 | mRNA | 68960623 | 68960850 | 68960623 | ID=Msa0698620-mRNA-1;Parent=Msa0698620;Name=Msa0698620-mRNA-1;_AED=0.29;_eAED=0.29;_QI=0|-1|0|1|-1|1|1|0|75 |
| chr4_4 | exon | 68960623 | 68960850 | 68960623 | ID=Msa0698620-mRNA-1:exon:20588;Parent=Msa0698620-mRNA-1 |
| chr4_4 | CDS | 68960623 | 68960850 | 68960623 | ID=Msa0698620-mRNA-1:cds;Parent=Msa0698620-mRNA-1 |
| Gene Sequence |
| Protein sequence |
