RetrogeneDB ID: | retro_pabe_737 | ||
Retrocopylocation | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | 11:110565251..110565548(+) | ||
| Located in intron of: | ENSPPYG00000003887 | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | COX7A2L | ||
| Ensembl ID: | ENSPPYG00000012462 | ||
| Aliases: | None | ||
| Description: | cytochrome c oxidase subunit 7A-related protein, mitochondrial [Source:RefSeq peptide;Acc:NP_001125026] |
Retrocopy-Parental alignment summary:
>retro_pabe_737
ATGGGCTACAAATTGAGTGGCTTCACGTTCTAGTTGGTGGGAGCATGGATGTCAGAGGCCTATAGCCCACAGGGATTAAA
GCCTGTGGTTTCCACAGAAGCACCACCTATCATATTTGCCATACCAACTAAGCTGACCTCTGATTCCACTGCATATAATT
TTGCTAGGAAAAACAAAGTTCCAGAGCTGCAGAAGTTTCTCCAGAAAGCTGATGATGTGCCCATCCACCTGAAATGAGGC
TTCCCTGACCAAATGCTATACTGGACCACCATGGTGCTGACCGTGGGTGGGATACTG
ATGGGCTACAAATTGAGTGGCTTCACGTTCTAGTTGGTGGGAGCATGGATGTCAGAGGCCTATAGCCCACAGGGATTAAA
GCCTGTGGTTTCCACAGAAGCACCACCTATCATATTTGCCATACCAACTAAGCTGACCTCTGATTCCACTGCATATAATT
TTGCTAGGAAAAACAAAGTTCCAGAGCTGCAGAAGTTTCTCCAGAAAGCTGATGATGTGCCCATCCACCTGAAATGAGGC
TTCCCTGACCAAATGCTATACTGGACCACCATGGTGCTGACCGTGGGTGGGATACTG
ORF - retro_pabe_737 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.8 % |
| Parental protein coverage: | 86.84 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MYYKFSGFTQKLAGAWASEAYSPQGLKPVVSTEAPPIIFATPTKLTSDSTAYDYAGKNKVPELQKFFQKA |
| M.YK.SGFT..L.GAW.SEAYSPQGLKPVVSTEAPPIIFA.PTKLTSDSTAY..A.KNKVPELQKF.QKA | |
| Retrocopy | MGYKLSGFTF*LVGAWMSEAYSPQGLKPVVSTEAPPIIFAIPTKLTSDSTAYNFARKNKVPELQKFLQKA |
| Parental | DGVPVYLKRGLPDQMLYRTTMALTVGGTI |
| D.VP..LK.G.PDQMLY.TTM.LTVGG.. | |
| Retrocopy | DDVPIHLK*GFPDQMLYWTTMVLTVGGIL |
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 | 23 .44 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 17 .15 RPM |
| SRP007412_heart | 0 .03 RPM | 11 .83 RPM |
| SRP007412_kidney | 0 .00 RPM | 16 .77 RPM |
| SRP007412_liver | 0 .06 RPM | 11 .29 RPM |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_737 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_737 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_737 has 3 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_825 |
| Pan troglodytes | retro_ptro_575 |
| Gorilla gorilla | retro_ggor_674 |
Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Pongo abelii | ENSPPYG00000012462 | 1 retrocopy |
retro_pabe_737 ,
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