RetrogeneDB ID: | retro_ptro_1747 | ||
Retrocopy location | Organism: | Chimpanzee (Pan troglodytes) | |
| Coordinates: | 2B:227779095..227779480(-) | ||
| Located in intron of: | ENSPTRG00000012975 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RRAS2 | ||
| Ensembl ID: | ENSPTRG00000003383 | ||
| Aliases: | None | ||
| Description: | related RAS viral (r-ras) oncogene homolog 2 [Source:HGNC Symbol;Acc:17271] |
Retrocopy-Parental alignment summary:
>retro_ptro_1747
GGAGCCATGAGACAACAGAATATCAAGACTGGTGAGGGCTTCCTATTGGTCTTTTGAGTCACAGGTCGAGGCAGTTTTGG
AAAAAATCTATACATTTCAAAGACAGATCCTCAGAGTAAAGGATTATGATGAGTTTCCAATGATTTTAATTGGAAATAAA
GCAGATCTGGATCATTAAAGACAAGTAACATAGGAAGGACACAGTTAGTACAGCAACTTAAGGCAGCATACCCAGAAGGC
ATTAGCAAAGATTAGAACGAATGTAGATTAAGCTTTCCATTAACTTGTCCAAGTTATAAGGAAATTTCAAGAGCCGTAAC
TTCCTTCTTCACCAGAACCGACACGGAAAGAAAAAGACAAGAAAGGCTGCTACTGTGTCATTTTC
ORF - retro_ptro_1747 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.08 % |
| Parental protein coverage: | 63.24 % |
| Number of stop codons detected: | 7 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | GAMREQYMRTGEGFLLVFSVTDRGSF-EEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQ |
| GAMR.Q...TGEGFLLVF.VT.RGSF.E.IY.FQRQILRVKD.DEFPMILIGNKADLDH.RQVT..EG.. | |
| Retrocopy | GAMRQQNIKTGEGFLLVF*VTGRGSF>EKIYTFQRQILRVKDYDEFPMILIGNKADLDH*RQVT-*EGHS |
| Parental | LARQLKVTYMEASAKIRMNVDQAFHELVRVIRKFQEQECPPSPEPTRKEKDKKGCHCVIF |
| ....L......A.AKIR.NVD.AFH.LV.VIRKFQE...P.SPEPTRKEKDKKGC.CVIF | |
| Retrocopy | *YSNLRQHTQKALAKIRTNVD*AFH*LVQVIRKFQEP*LPSSPEPTRKEKDKKGCYCVIF |
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 | 3 .95 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 4 .52 RPM |
| SRP007412_heart | 0 .00 RPM | 11 .95 RPM |
| SRP007412_kidney | 0 .00 RPM | 20 .29 RPM |
| SRP007412_liver | 0 .00 RPM | 13 .39 RPM |
| SRP007412_testis | 0 .00 RPM | 14 .44 RPM |
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1747 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1747 was not experimentally validated.