RetrogeneDB ID: | retro_pabe_1626 | ||
Retrocopy location | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | 19:20138845..20139167(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSPPYG00000019351 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_pabe_1626
AGAATGAATGAGGTACTAGCAGCAGTCTGCACCAAGCTTCTACAGACATAATGCGTCAAATGTTTACTCTCCATTTTTAC
TACAAGGCCAGTCCAAGAGTTACCTTGTGTTGAAAATCTTAATAGTGTAGGTCTCAACAGAGGACATATTATGAGAGAAA
ACTTAAGGATCCCTACCTCATACCCAGAGACCTCAAATAGCAGCATGAACTACTCAACCAAGACTCAGCCAGATTGGATA
GAAAAAAATAACTACAGAAGTAAAAAATGTTGTTGCTGAATTGGAAATTAGCTCTCATATGGTTTCTTCTGTAGAATCCA
CT
ORF - retro_pabe_1626 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 50.46 % |
| Parental protein coverage: | 63.16 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | RSNKKIAVISTKLLMEKERMKYFLSTLPTRPDPELPCVENLNSIGLNRKYIPKTPIRIPTSNPQTSNNCK |
| R.N...A...TKLL......K..LS...TRP..ELPCVENLNS.GLNR..I.....RIPTS.P.TSN... | |
| Retrocopy | RMNEVLAAVCTKLL-QT*CVKCLLSIFTTRPVQELPCVENLNSVGLNRGHIMRENLRIPTSYPETSNSSM |
| Parental | NSLTEMEPDCVE-QIITETKKTFAVLGTCSHLLSSLEST |
| N..T...PD..E..I.TE.K...A.L...SH..SS.EST | |
| Retrocopy | NYSTKTQPDWIE>KITTEVKNVVAELEISSHMVSSVEST |
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 .28 RPM | 0 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .12 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .07 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .06 RPM | 0 .00 RPM |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1626 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1626 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_1626 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 | ENSPPYG00000019351 | 1 retrocopy |
retro_pabe_1626 ,
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