RetrogeneDB ID: | retro_pabe_2503 | ||
Retrocopylocation | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | 4:9651166..9651361(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | PAGE1 | ||
| Ensembl ID: | ENSPPYG00000020345 | ||
| Aliases: | None | ||
| Description: | P antigen family, member 1 (prostate associated) [Source:HGNC Symbol;Acc:4107] |
Retrocopy-Parental alignment summary:
>retro_pabe_2503
CAGCCTAGACCAATACAATCTGTACAACCTGAGGTGATCTGGCCTATTCTGCCCAAGCAGTTCAGTCATGAACCACCTGA
AGTGGAACCACCAACTCAAAGTCAGGATTCTTCACCTGCTCAGGAGAGAGAGGATGAGGGAGCATCTGCAGCTCAAAGGC
CTGAACTGAAAGCTGATTGCCAGGAACTGGTTCAA
CAGCCTAGACCAATACAATCTGTACAACCTGAGGTGATCTGGCCTATTCTGCCCAAGCAGTTCAGTCATGAACCACCTGA
AGTGGAACCACCAACTCAAAGTCAGGATTCTTCACCTGCTCAGGAGAGAGAGGATGAGGGAGCATCTGCAGCTCAAAGGC
CTGAACTGAAAGCTGATTGCCAGGAACTGGTTCAA
ORF - retro_pabe_2503 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.85 % |
| Parental protein coverage: | 62.5 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | QRRLIYRRRPIIYIESSEESSDEQPDEEESPTQSQDSTPAEEREDEGASAAQGQEPEADSQELVQ |
| Q.R.I....P..............P.E.E.PTQSQDS.PA.EREDEGASAAQ..E..AD.QELVQ | |
| Retrocopy | QPRPIQSVQPEVIWPILPKQFSHEPPEVEPPTQSQDSSPAQEREDEGASAAQRPELKADCQELVQ |
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_prefrontal_cortex | 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 |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_2503 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_2503 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_2503 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Pongo abelii | ENSPPYG00000020345 | 1 retrocopy |
retro_pabe_2503 ,
|
| Pongo abelii | ENSPPYG00000020369 | 1 retrocopy |