RetrogeneDB ID: | retro_ptro_110 | ||
Retrocopy location | Organism: | Chimpanzee (Pan troglodytes) | |
| Coordinates: | 1:110447918..110448374(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSPTRG00000039007 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SNX22 | ||
| Ensembl ID: | ENSPTRG00000007155 | ||
| Aliases: | None | ||
| Description: | sorting nexin 22 [Source:HGNC Symbol;Acc:16315] |
Retrocopy-Parental alignment summary:
>retro_ptro_110
GGGAAGGAGGTGTTTAAGATAGAAGTGCTAATGAATGGAAGAAAACATTTTGTTGAAAAGAGATACAGCGAATTTCATGC
TTTACACAAAAAGCTTAAGAAATGTATAAAAACTCCAGAAATCCCTTCTAAACATGTTAGGAACTGGGTCCCCAAAGTCT
TGGAACAGCGACGACAAGGCTTGGAAACATACTTACAGGCTGTCATTTTAGAAAATGAAGAACTTCCCAAACTGTTTCTT
GATTTCCTAAATGTGCGACACTTGCCCTCTCTACCAAAGGCAGAAAGTTGTGGATCTTTTGATGAAACAGAGTCTGAAGA
GTCAAGCAAACTGTCCCACCAGCCTGTGCTGCTGTTCCTCAGGGATCCATATGTCTTGCCTGCAGCCAGCGATTTTCCAA
ATGTGGTTATTGAAGGAGTCCTCCATGGGATATTTTACCCTCATCTACAGCCCAGG
ORF - retro_ptro_110 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 50.67 % |
| Parental protein coverage: | 77.72 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VFRVEVLCSGRRHTVPRRYSEFHALHKRIKKLYKVPDFPSKRLPNWRTRGLEQRRQGLEAYIQGILYLNQ |
| VF..EVL..GR.H.V..RYSEFHALHK..KK..K.P..PSK...NW....LEQRRQGLE.Y.Q.....N. | |
| Retrocopy | VFKIEVLMNGRKHFVEKRYSEFHALHKKLKKCIKTPEIPSKHVRNWVPKVLEQRRQGLETYLQAVILENE |
| Parental | EVPKELLEFLRLRHFPTDPKASNWGTVREFLPGDSSSQQHQRPVLSFHVDPYVCNPSPESLPNVVVNGVL |
| E.PK..L.FL..RH.P..PKA...G...E.....SS...HQ.PVL.F..DPYV..P.....PNVV..GVL | |
| Retrocopy | ELPKLFLDFLNVRHLPSLPKAESCGSFDETESEESSKLSHQ-PVLLFLRDPYVL-PAASDFPNVVIEGVL |
| Parental | QGLYSFSISP |
| .G.......P | |
| Retrocopy | HGIFYPHLQP |
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 | 2 .04 RPM | 11 .71 RPM |
| SRP007412_cerebellum | 1 .36 RPM | 3 .98 RPM |
| SRP007412_heart | 0 .79 RPM | 0 .32 RPM |
| SRP007412_kidney | 3 .71 RPM | 0 .34 RPM |
| SRP007412_liver | 1 .70 RPM | 0 .92 RPM |
| SRP007412_testis | 1 .37 RPM | 0 .32 RPM |
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_110 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_110 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ptro_110 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Felis catus | ENSFCAG00000004181 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000007155 | 1 retrocopy |
retro_ptro_110 ,
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