RetrogeneDB ID: | retro_pabe_188 | ||
Retrocopy location | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | 11:1459433..1459943(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSPPYG00000002906 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSPPYG00000020050 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_pabe_188
ATGGGCTGCTGTGGCTGCTCCGGAGGCTGCGGTTCCGGCTGTGGGGGCTGTGGGGGATGTGGCTCTAGCTGCTGTGTGCC
TGTCTGCTGCTGCAAGCCTGTGTGCTGCTGTGTGCCAGCTTGTTCCTGCTCCAGCTGTGGCAAAGGGGGCTGTGGCTCTT
GTGGGGGCTCCAAGGGGGGCTGTGGCTCCTGTTGGGGGTCCAAGGGGGGCTGTGGCTCCTGTGGGGGATCCAAGGGGGAC
TGTGGCTCCTGTGGGGGGTCGAAGGGGGACTGTGGCTCCTTTGGGGGCTCGAAGGGGGGCTGTGGTTCTTATGGCTGCTC
CCAGTGCAGCTGCTGGAAGCCCTGCTGCTGCTCCTCAGGCTGTGGGTCATCCTGCTGCCAGTCCAGCTGCTGTAAGCCCT
GTAGCTGCTCCTCAGGCTGTGGATCATCCTGCTGCCAATCCAGCTGCTACAAGCCCTGCTGCTGTCAGTCCAGCTGCTGT
GTCCCCGTGTGCTGCCAGTGTAAGATCTGA
ORF - retro_pabe_188 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.44 % |
| Parental protein coverage: | 87.25 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | GCGGCGSGCGGCGSGCGSGCGGCGSSCCVPVCCCKPVCSCVPACSCSSCGSCGGSKGGCDSCGGSKGSCG |
| GC.GC....GGCGSGCG.GCGGCGSSCCVPVCCCKPVC.CVPAC...SC.SCG..KGGC.SCGGSKG.CG | |
| Retrocopy | GCCGCS---GGCGSGCG-GCGGCGSSCCVPVCCCKPVCCCVPAC---SCSSCG--KGGCGSCGGSKGGCG |
| Parental | SCGGSKGGCGSCGGSKGGCGSSCGGSGSSCGGCGSS--CCVPICCCSCSSCGSYGGSKGGCGSCSCCQSS |
| SC.GSKGGCGSCGGSKG.CG.SCGGS...CG..G.S...C....C..C.SC........GCGS.SCCQSS | |
| Retrocopy | SCWGSKGGCGSCGGSKGDCG-SCGGSKGDCGSFGGSKGGCGSYGCSQC-SCWKPCCCSSGCGS-SCCQSS |
| Parental | CCKPCCCSSGCGSSCCQSSCCKPCCSQSSCCVPVCCQCKI |
| CCKPC.CSSGCGSSCCQSSC.KPCC.QSSCCVPVCCQCKI | |
| Retrocopy | CCKPCSCSSGCGSSCCQSSCYKPCCCQSSCCVPVCCQCKI |
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 .03 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_188 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_188 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_188 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Pongo abelii | ENSPPYG00000020050 | 1 retrocopy |
retro_pabe_188 ,
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