RetrogeneDB ID: retro_ggor_416

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:103050408..103051202(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000009228
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: C5ORF15
• Ensembl ID: ENSGGOG00000021947
• Aliases: None
• Description: None

Sequence

>retro_ggor_416
ATGGTTGCTGCTGCCCTGAGGAGGATGAGGGGGCCCGCACAAGCAAAACTGCTGCCCAGGTCAGCCATCCAAGCCTTTGC
GGAGCTGGTGCGGCCGCTGGTCTTGGCGCTCCTCCTTGTGTCTGCCACTCTATCCAGTGTTGTATCATGGACTGATTCAC
TGATTCAAACTGTACTCAACTCAGATATTTCTACCCCAAATGTGAATGCTTTAACACATGAAAAACAAACCAAATCTTCT
ATTTCCCAAATCAGTACCACCCTCCCTCCCACAATAAGTACTGAGAAAAGTGGAGGAGCATCTGTGGCCCCTCATCCCTC
GCCTACACCTCTGTCTCAAGAGGAAGCTGATAACAATGAAGATCCTAGCATAGGGAGGAGGATCTTCTCACGCTGAACAG
TTCTCCATCCACAGCCAAAGACACTCTGGACAGTGGCAATTATGGAGAACCAGACTATGACTGGACCACGGGCCACAGGG
ATGACGACGAGTCTGATGACACCTTGGAAGAAAACAGGGGTTACATGGAAATTGAACAGTCAGTGAAATCTTTTAAGATG
CCATCCTCAAATATAGAAGAGGAAGATAGCCATTTCTTTTTTCATCTCATTATTTTTGCTTTTTGCATTGCTATTGTCTA
CATTACATATCACAAAAAAAGGAAGATTTTTCTTCTGGTTCGAAGCAGAAAGTGGCGTGATGGCCTTTGTTCCAAAACAG
TGGAATACCATTGCCTAGATCAGAATGTTAATGAGGCAATGTCTTCTTTGAAGATTACCAATAATTATATTTTT

Alignment

ORF - retro_ggor_416 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.59 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAAAVLKRMRGPAQAKLLPGSAIQALVGLARPLVLALLLVSAALSSVVSRTDSPSPAVLDSHISTPNVNA
          M.AA.L.RMRGPAQAKLLP.SAIQA...L.RPLVLALLLVSA.LSSVVS.TDS....VL.S.ISTPNVNA
Retrocopy MVAAALRRMRGPAQAKLLPRSAIQAFAELVRPLVLALLLVSATLSSVVSWTDSLIQTVLNSDISTPNVNA

Parental  LTHENQTKPSISQISTTLPPTTSTKKSGGASVVPHPSPTPLSQEEADNNEDPSI-EEEDLLMLNSSPSTA
          LTHE.QTK.SISQISTTLPPT.ST.KSGGASV.PHPSPTPLSQEEADNNEDPSI..EEDLL.LNSSPSTA
Retrocopy LTHEKQTKSSISQISTTLPPTISTEKSGGASVAPHPSPTPLSQEEADNNEDPSI<REEDLLTLNSSPSTA

Parental  KDTLDNGDYGEPDYDWTTGPRDDDESDDTLEENRGYMEIEQSVKSFKMPSSNIEEEDSHFFFHLIIFAFC
          KDTLD.G.YGEPDYDWTTG.RDDDESDDTLEENRGYMEIEQSVKSFKMPSSNIEEEDSHFFFHLIIFAFC
Retrocopy KDTLDSGNYGEPDYDWTTGHRDDDESDDTLEENRGYMEIEQSVKSFKMPSSNIEEEDSHFFFHLIIFAFC

Parental  IAVVYITYHNKRKIFLLVQSRKWRDGLCSKTVEYHRLDQNVNEAMPSLKITNDYIF
          IA.VYITYH.KRKIFLLV.SRKWRDGLCSKTVEYH.LDQNVNEAM.SLKITN.YIF
Retrocopy IAIVYITYHKKRKIFLLVRSRKWRDGLCSKTVEYHCLDQNVNEAMSSLKITNNYIF

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain_prefrontal_cortex	0.00 RPM	9.59 RPM
SRP007412_cerebellum	0.04 RPM	9.10 RPM
SRP007412_heart	0.00 RPM	4.44 RPM
SRP007412_kidney	0.00 RPM	28.09 RPM
SRP007412_liver	0.00 RPM	15.17 RPM
SRP007412_testis	0.00 RPM	29.94 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_416 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_416 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pan troglodytes	retro_ptro_324
Pongo abelii	retro_pabe_295

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000021947	1 retrocopy	retro_ggor_416 ,
Nomascus leucogenys	ENSNLEG00000008019	1 retrocopy	retro_nleu_1021,
Pongo abelii	ENSPPYG00000015780	1 retrocopy	retro_pabe_295,
Pan troglodytes	ENSPTRG00000017234	1 retrocopy	retro_ptro_324,
Pteropus vampyrus	ENSPVAG00000012421	1 retrocopy	retro_pvam_171,