RetrogeneDB ID: | retro_oana_40 | ||
Retrocopy location | Organism: | Platypus (Ornithorhynchus anatinus) | |
| Coordinates: | Contig185460:492..836(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ox_plat1_467209 | ||
| Ensembl ID: | ENSOANG00000020682 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_oana_40
ATGCTCACTCTTCATAATGCCAACATAAACCTTTCAGTAATTGGTCTGAAGGCATTAGATCTTCTTCTGACTTCAGATGT
GATGACTCTGTTGGTTTTGGATGAAGAAAGTAATGTATTTTTGTTAATTTTTGATGCTATGCATACCTTCCCATCTAATG
AAGAAGTTCAAAGATTTGGATGTAAAGCTTTACATGTGCTTTTTGAAAGAGTTCCAGAAGAGCAACTGACTGAGTTTTTT
GAGAGCAAAGATCATATGATTGTGTTGGATGCATAAAACAATTTAAAAATAAAGAGGAAGTGGTGTTTCATGCACTTCAC
TGCTTACACTCATTGGCAGTTCCA
ORF - retro_oana_40 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 93.97 % |
| Parental protein coverage: | 52.36 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MLTLHNANINLSVIG-KALDLLLTSDVMTLLVLDEESDVFLLIFDA-HTFPSNEEVQRFGCKALH-LFER |
| MLTLHNANINLSVIG.KALDLLLTSDVMTLLVLDEES.VFLLIFDA.HTFPSNEEVQRFGCKALH.LFER | |
| Retrocopy | MLTLHNANINLSVIGLKALDLLLTSDVMTLLVLDEESNVFLLIFDAMHTFPSNEEVQRFGCKALHVLFER |
| Parental | -PEEQLTEFFESKDHMIVLDA-LKQFKNKEEVVFHALHCLHSLAVP |
| .PEEQLTEFFESKDHMIVLDA..KQFKNKEEVVFHALHCLHSLAVP | |
| Retrocopy | VPEEQLTEFFESKDHMIVLDA<IKQFKNKEEVVFHALHCLHSLAVP |
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 .35 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .27 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .59 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .09 RPM |
| SRP007412_testis | 0 .00 RPM | 0 .83 RPM |
Ornithorhynchus anatinus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_oana_40 retrocopy.
Ornithorhynchus anatinus was not studied using FANTOM5 data.
retro_oana_40 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 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ornithorhynchus anatinus | ENSOANG00000020682 | 1 retrocopy |
retro_oana_40 ,
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