RetrogeneDB ID: | retro_oana_30 | ||
Retrocopy location | Organism: | Platypus (Ornithorhynchus anatinus) | |
| Coordinates: | Contig137672:16..630(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSOANG00000019682 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSOANG00000008375 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_oana_30
CAGATCATGGTCAACCACACCACAGTGATGGAATTCCTTCTTCTGGGGTTCTCAGAGGTCCGGGAGCTGCAGCTGGTCCA
CGCCGTGCTGTTCTTCCTGCTCTACCTGGTTGCCCTGACGGGGAATCTCCTCATCGCTGCCATCACCACCCTTGACTGGC
ACCTCCACAACCCCATGTACTTTTTCCTCAGGCACCTGTCCATCCTCGACCTCTGCCTCATCTCCGTCACCCTCCCCAAG
TCCAACCTGGTCTCTCTGACCACCTGCTACTCCATCTCCTTTCTGGATTGTTGTTTGCAAGTCCTTCTGGTGCTTTTGTT
TGCCACTTCAGAGCTGTTCATCCTCACGGCCATGTCCTACAACCATAACACCGCCACCTGCCACCCTTTGCGCTAGGAGG
TCATCATGGCCCAAGGAGCCTGTGGGAAGATGGCGGCCACTTCCTGGCTCAGCAAATACCTCCTTGGAGCATCCTCTCAG
CTGGTGCATTATCCTTGCCCATCTGTGGGTCCCTTGAGATCCAAGCCCCTTCTGGGCCGTCCTTTCCTGGAGCAGATATC
TGTTGGGCCGAACACACAACCCTTGATTTAACTGTAGCCACTGGATTATGTTTG
ORF - retro_oana_30 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.38 % |
| Parental protein coverage: | 65.38 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | QIMVNHTTVMEFLLLGFSEVRELQLVHAVLFLLLYLVALTGNVLIVAITTLDWHLHTPTYLFLRHLSILD |
| QIMVNHTTVMEFLLLGFSEVRELQLVHAVLF.LLYLVALTGN.LI.AITTLDWHLH.P.Y.FLRHLSILD | |
| Retrocopy | QIMVNHTTVMEFLLLGFSEVRELQLVHAVLFFLLYLVALTGNLLIAAITTLDWHLHNPMYFFLRHLSILD |
| Parental | L--ISVTLPKSILVSLTTCHSISFLDCCLQVLLVLLFATSERFILTAMSYDRYTAICHPLRLKVIMAQGA |
| L..ISVTLPKS.LVSLTTC.SISFLDCCLQVLLVLLFATSE.FILTAMSY...TA.CHPLR..VIMAQGA | |
| Retrocopy | LCLISVTLPKSNLVSLTTCYSISFLDCCLQVLLVLLFATSELFILTAMSYNHNTATCHPLR*EVIMAQGA |
| Parental | CGKMAATSWLSRCLLGAS-LSAGALSL-PICGPREIQQIFRDIPSLLKIS-CSEEHTTLDLTVAIGFCL |
| CGKMAATSWLS..LLGAS.LSAGALSL.P..GP..........P.L..IS.C..EHTTLDLTVA.G.CL | |
| Retrocopy | CGKMAATSWLSKYLLGAS<LSAGALSL>PSVGPLRSKPLLGR-PFLEQIS<CWAEHTTLDLTVATGLCL |
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 .00 RPM | 0 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .00 RPM | 0 .00 RPM |
Ornithorhynchus anatinus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_oana_30 retrocopy.
Ornithorhynchus anatinus was not studied using FANTOM5 data.
retro_oana_30 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 1 parental gene, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ornithorhynchus anatinus | ENSOANG00000008375 | 3 retrocopies |
retro_oana_29, retro_oana_30 , retro_oana_48,
|