RetrogeneDB ID: | retro_opun_4 | ||
Retrocopy location | Organism: | Red rice (Oryza punctata) | |
| Coordinates: | 3:29042293..29042803(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | OPUNC03G26800 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | OPUNC01G37500 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_opun_4
ATGGCGAAGAAAGCAACACCCAACGCCGCCGCAGCCGGCAACTGCAAGTACTGGCTGCTCAAGACGGAGCCGGGGGAGTG
GTCGTGGTCCGACCAGGCGCGCGCCCCCGGCGGCGGCGTCGCGCCGTGGGACGGCGTCCGCAACCGCCAGGCCATCAACA
GCCTCCGCGCCATGCGGGAAGGCGACCGCTGCCTCTTCTACCACTCCGGCGCCGGGGCCGCCTCCCGCCGCGTCGTCGGC
GTTGTGGAGGTCGCCAGGGAGTGGTACGAGGGGGAGGCGGCGAGCGGCGGCGCCGTTGACGTCCGCGCGGTGGGGGAGTT
CCGGCGGCCGGTGGCGCTCGGGGACATCAAGAAGGCGGCGGGTGGCGGCGAGGTGGAGGGGATGAGGGAGTTCGCGCTGC
TCCGGCAGCCTCGGCTGTCGGTGATGCCCGTGCCGGCGAAGGTCTGGGATTGGATTTGCGAGATGGGAGGGGGCTTTGTG
CAAGATGGGGAGGATGAAGATGAATGCTGA
ORF - retro_opun_4 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 58.82 % |
| Parental protein coverage: | 50.25 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | WLAVANRRRSTPRRKSSGDEREGRDEAKRQASMSHILTNAPVARGLYEGEAASGSAVDVRAVGEFQLPVA |
| W..V.NR......R......R.........A..........VAR..YEGEAASG.AVDVRAVGEF..PVA | |
| Retrocopy | WDGVRNRQAINSLRAMREGDRCLFYHSGAGAASRRVVGVVEVAREWYEGEAASGGAVDVRAVGEFRRPVA |
| Parental | LGDIKKAKGGEEVEGMREFALLRRPRLSVMPV |
| LGDIKKA.GG.EVEGMREFALLR.PRLSVMPV | |
| Retrocopy | LGDIKKAAGGGEVEGMREFALLRQPRLSVMPV |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Oryza punctata was not studied using RNA-Seq expression data.
Oryza punctata was not studied using ChIP-Seq data.
Oryza punctata was not studied using EST data.
Oryza punctata was not studied using FANTOM5 data.
retro_opun_4 was not experimentally validated.
Retrocopy orthology:
Oryza punctata does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryza punctata | OPUNC01G37500 | 1 retrocopy |
retro_opun_4 ,
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