RetrogeneDB ID: retro_ggor_2170

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:49791287..49791579(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000008601
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PGRMC2
• Ensembl ID: ENSGGOG00000026492
• Aliases: None
• Description: None

Sequence

>retro_ggor_2170
GGCAAGGTGTTCAGCATGACCAGAGGTTGCAAGTTCCAAGGGCCAGGGGGCCACACAGGATCTTTGCCGAAAGAGATACA
TCCAGGGTCCCTGCCACATTTTGCCTGGATAAGGGAGCACTGCAGGACAAGCATGATGACCTTTCTGACCTCCCTCCTGC
CCAGGAGGAGACCCTGAGTGACTGGGCCTCTCAGTTCACGTTCAAATATTCTCACCTGGATAAACTGGTGAAGGAGGGGA
GGTACCCACTGTGGATTCAGATAAGGAAGAACCAAAAGATGAGAATGTACAG

Alignment

ORF - retro_ggor_2170 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53. %
• Parental protein coverage: 55.37 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GKVFDVTKGSKFYGPAG-PYGIFAGRDASRGLATFCLDKDALRDEYDDLSDLNAVQMESVREWEMQFKEK
          GKVF..T.G.KF.GP.G.P..IFA.RD.SR..ATFCLDK.AL.D..DDLSDL...Q.E....W..QF..K
Retrocopy GKVFSMTRGCKFQGPGG<PHRIFAERDTSRVPATFCLDKGALQDKHDDLSDLPPAQEETLSDWASQFTFK

Parental  YDYVGRLLKP-GEEPSEYTDEEDTKDHNKQ
          Y.....L.K..GE.P....D.E..KD.N.Q
Retrocopy YSHLDKLVKE<GEVPTVDSDKEEPKDENVQ

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	0.05 RPM	34.00 RPM
SRP007412_cerebellum	0.00 RPM	24.55 RPM
SRP007412_heart	0.00 RPM	19.29 RPM
SRP007412_kidney	0.00 RPM	80.18 RPM
SRP007412_liver	0.00 RPM	74.10 RPM
SRP007412_testis	0.00 RPM	63.92 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_2170 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2170 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1824
Pongo abelii	retro_pabe_1491
Macaca mulatta	retro_mmul_1252

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003328	1 retrocopy	retro_cjac_1865,
Gorilla gorilla	ENSGGOG00000026492	1 retrocopy	retro_ggor_2170 ,
Procavia capensis	ENSPCAG00000002433	1 retrocopy	retro_pcap_239,