RetrogeneDB ID: | retro_oana_123 | ||
Retrocopy location | Organism: | Platypus (Ornithorhynchus anatinus) | |
| Coordinates: | Ultra519:3492269..3492517(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NIPA1 | ||
| Ensembl ID: | ENSOANG00000031286 | ||
| Aliases: | None | ||
| Description: | non imprinted in Prader-Willi/Angelman syndrome 1 [Source:HGNC Symbol;Acc:17043] |
Retrocopy-Parental alignment summary:
>retro_oana_123
GGGGCGATGAGGCCCAGTCGGTTGCCGTGTCCCTCGGTCTGAGCGTGGCTTTAGTGTCCAGCCTGGTGAACGGATCCACT
TTCATCCTGCAGAAAAAGAGAATCATCCGGGCCAAGAGATGAGGAACTTCCTTAGTTTGGTGGTCTGGCAAAATTGCAAT
GGTGTTTCGTCAGATTGGAAATTTCCTAGTCTACATCGTTGTTCCTACTGTGCTGGTGACACCTCTGGATGCATTAGGAG
TTCCATTT
ORF - retro_oana_123 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.0 % |
| Parental protein coverage: | 76.99 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | GAMRPS-PAAVSLGLSVAVVSSLVNGSTFVLQKKGIVRAKRRGTSYLTDIVWWCGTIAMALGQIGNFLAY |
| GAMRPS...AVSLGLSVA.VSSLVNGSTF.LQKK.I.RAKR.GTS.....VWW.G.IAM...QIGNFL.Y | |
| Retrocopy | GAMRPS<SVAVSLGLSVALVSSLVNGSTFILQKKRIIRAKR*GTS----LVWWSGKIAMVFRQIGNFLVY |
| Parental | TAVPTVLVTPLGALGVPF |
| ..VPTVLVTPL.ALGVPF | |
| Retrocopy | IVVPTVLVTPLDALGVPF |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP007412_brain | 0 .35 RPM | 1 .94 RPM |
| SRP007412_cerebellum | 0 .28 RPM | 1 .08 RPM |
| SRP007412_heart | 0 .09 RPM | 0 .18 RPM |
| SRP007412_kidney | 0 .59 RPM | 1 .18 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .36 RPM |
| SRP007412_testis | 0 .24 RPM | 0 .47 RPM |
Ornithorhynchus anatinus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_oana_123 retrocopy.
Ornithorhynchus anatinus was not studied using FANTOM5 data.
retro_oana_123 was not experimentally validated.
Retrocopy orthology:
Ornithorhynchus anatinus 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ornithorhynchus anatinus | ENSOANG00000031286 | 1 retrocopy |
retro_oana_123 ,
|
| Rattus norvegicus | ENSRNOG00000042702 | 1 retrocopy |