RetrogeneDB ID: | retro_ggor_2552 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 7:136990990..136991571(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSGGOG00000027031 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | UQCRFS1 | ||
| Ensembl ID: | ENSGGOG00000012978 | ||
| Aliases: | None | ||
| Description: | Cytochrome b-c1 complex subunit Rieske, mitochondrial [Source:UniProtKB/TrEMBL;Acc:G3RB22] |
Retrocopy-Parental alignment summary:
>retro_ggor_2552
GGCAGGTTCATGCCCATCCTGTCAGCCATATCCTGCAGGGTGGCAGGCATGCTGTAGCCCCTGGTATAGGCCATGGTGCC
TGCCACCCTGGAGCTGCCTGTGCTGTACAAGGAGCAGCCTTTGCTATGCCAGGAGTCACTGAGTGGCCAGGCCATGAGCC
TGTCTTGGGTCAACTCTGTGGGCCTCAATGTCCCTGCTTCTGTTCGTTATTCCCATACAGACATCAATGTGCCTGACTTC
CCTGATTACTGTTGCATTGAGATTTTTGATGGGACAAAGTCTTCAAAAGAGGATGGCGAGGCTAGGAAAGGGTTCTCCTA
TTTGGTAACTGCAACAACTGCTGTGGGTGTCACATATGCTGCCAAGAATGTCATCTCCCAGTTTGTTTCCAGCATCAGTG
CTTCTGCTGATGAGTCGGCCATGTCGAAAATTGAAATCAAGTTATTTGATATTCCAGAAGGCAAGAACATGGCTTTCAAA
TGGAGAGGCAAATCCCTGTTTGTATGCCACAGAACCAAGAAGGAGATTGACCAAGAACCTGCAGTTGAAGAGTCCTATCT
GAGGGCCCATAGCATGATTTA
ORF - retro_ggor_2552 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 65.13 % |
| Parental protein coverage: | 70.8 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | GPFAPVLSATSREVAGVLRPLVQATVPATPEQPVLDLKRPFLSRESLSGQAVRRPLVASVGLNVPASVCY |
| G.F.P.LSA.S..VAG.L.PLV.A.VPAT................SLSGQA.....V.SVGLNVPASV.Y | |
| Retrocopy | GRFMPILSAISCRVAGML*PLV*AMVPATXXXXXXXXXXXXXXXXSLSGQAMSLSWVNSVGLNVPASVRY |
| Parental | SHTDIKVPDFSEYRRLEVLDSTKSSRESSEARKGFSYLVTGVTTVGVAYAAKNAVTQFVSSMSASADVLA |
| SHTDI.VPDF..Y...E..D.TKSS.E..EARKGFSYLVT..T.VGV.YAAKN...QFVSS.SASAD..A | |
| Retrocopy | SHTDINVPDFPDYCCIEIFDGTKSSKEDGEARKGFSYLVTATTAVGVTYAAKNVISQFVSSISASADESA |
| Parental | LAKIEIKLSDIPEGKNMAFKWRGKPLFVRHRTQKEIEQEAAVELSQLR-DPQHDL |
| ..KIEIKL.DIPEGKNMAFKWRGK.LFV.HRT.KEI.QE.AVE.S.LR..P.HDL | |
| Retrocopy | MSKIEIKLFDIPEGKNMAFKWRGKSLFVCHRTKKEIDQEPAVEESYLR<GP*HDL |
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 | 50 .69 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 30 .85 RPM |
| SRP007412_heart | 0 .00 RPM | 71 .14 RPM |
| SRP007412_kidney | 0 .16 RPM | 130 .52 RPM |
| SRP007412_liver | 0 .00 RPM | 43 .95 RPM |
| SRP007412_testis | 0 .00 RPM | 60 .30 RPM |
Gorilla gorilla was not studied using ChIP-Seq data.
Gorilla gorilla was not studied using EST data.
Gorilla gorilla was not studied using FANTOM5 data.
retro_ggor_2552 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_2552 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000001887 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000012978 | 1 retrocopy |
retro_ggor_2552 ,
|
| Pan troglodytes | ENSPTRG00000010777 | 1 retrocopy |