RetrogeneDB ID: | retro_pabe_746 | ||
Retrocopy location | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | 11:9486219..9486563(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C5orf63 | ||
| Ensembl ID: | ENSPPYG00000015732 | ||
| Aliases: | None | ||
| Description: | chromosome 5 open reading frame 63 [Source:HGNC Symbol;Acc:40051] |
Retrocopy-Parental alignment summary:
>retro_pabe_746
ATGCTCTGGTTTCAAGGAAATAGCATGCAACTTGCCAGATCCTCCCTTGGACTCTTCTTGATAAACTGCTCCGCCTCTAA
GACAACTCTGCCTGTGCTGACCTTATTCACAAAGGACCCATGTCCCCTCTGTGGCAAAGCCAAGGAAGTACTCAAGCCTT
ATAAAAACAGGGTTTATTTTACAGGAGGTGAACGTCACACTTCCAGAAAACTCTGCCTGGTATGAAAGGTATAAATTTGA
CATTCCTGTCTTTCACTTGTGTGGCCAGTTTCCTGATGATGCATCGAGAAAACACCTCAAAACTTGAAAAACAGCTCCTG
AAACTTGAGCAGCAAAGTACCGGA
ORF - retro_pabe_746 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 88.79 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | MLWFQGNSMQLARSSFGLFLRNCSASKTTLPVLTLFTKDSCPLCDEAKEVLKPYKNR-FIFQEVNITLPE |
| MLWFQGNSMQLARSS.GLFL.NCSASKTTLPVLTLFTKD.CPLC..AKEVLKPYKNR.FI.QEVN.TLPE | |
| Retrocopy | MLWFQGNSMQLARSSLGLFLINCSASKTTLPVLTLFTKDPCPLCGKAKEVLKPYKNR>FILQEVNVTLPE |
| Parental | NSVWYERYKFDIPVFHLNGQ-FLMMHRVNTSKLEKQLRKLEQQSTG |
| NS.WYERYKFDIPVFHL.GQ.FLMMHR.NTSKLEKQL.KLEQQSTG | |
| Retrocopy | NSAWYERYKFDIPVFHLCGQ>FLMMHRENTSKLEKQLLKLEQQSTG |
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 | 1 .27 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 3 .28 RPM |
| SRP007412_heart | 0 .00 RPM | 1 .96 RPM |
| SRP007412_kidney | 0 .00 RPM | 3 .68 RPM |
| SRP007412_liver | 0 .00 RPM | 2 .57 RPM |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_746 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_746 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_746 has 3 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_788 |
| Gorilla gorilla | retro_ggor_653 |
| Macaca mulatta | retro_mmul_1091 |
Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000164241 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000006111 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000009523 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000015732 | 1 retrocopy |
retro_pabe_746 ,
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