RetrogeneDB ID: retro_ggor_2165

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:48477384..48477685(+)
• Located in intron of: ENSGGOG00000015593

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: TMEM160
• Ensembl ID: ENSGGOG00000013410
• Aliases: None
• Description: None

Sequence

>retro_ggor_2165
CTCCGCTTCCGGAGGTCGCTACTGCTGCCTCAGTGGCCCCGGAGCAGGGGCGCCCAGGGGTCCTTCGCCCCCGGCCACGG
CCCCCACAACGGGGCTTCGCCGCCACCTGTGTCCGAGCTGGACCGTGCGGCGCCAGGCTCCTCTCCGAAAGGCGCACGAG
ACAGCTTTCTTCTCCTGGTTCCACAATGGCCTCCTGGCATCGGGCATCGGGGTTATCTCCTTCATGCAGAGTGACATGGA
TCACGAAGCAGCATATGGCTTCTTCCTGCTGGGCGGCCTGTGTACGGCGTGGGGCAGCGCC

Alignment

ORF - retro_ggor_2165 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.23 %
• Parental protein coverage: 53.19 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LRFRRSLLPPQRPRSGGARGSFAPGHGPRAGASPPPVSELDRADAWLLRKAHETAFL-SWFRNGLLASGI
          LRFRRSLL.PQ.PRS.GA.GSFAPGHGP..GASPPPVSELDRA......K.....FL.SWF.NGLLASGI
Retrocopy LRFRRSLLLPQWPRSRGAQGSFAPGHGPHNGASPPPVSELDRAAPGSSPKGARDSFL>SWFHNGLLASGI

Parental  GVISFMQSDMGREAAYGFFLLGGLCVVWGSA
          GVISFMQSDM..EAAYGFFLLGGLC..WGSA
Retrocopy GVISFMQSDMDHEAAYGFFLLGGLCTAWGSA

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	9.35 RPM
SRP007412_cerebellum	0.04 RPM	4.37 RPM
SRP007412_heart	0.00 RPM	2.85 RPM
SRP007412_kidney	0.00 RPM	2.66 RPM
SRP007412_liver	0.03 RPM	4.11 RPM
SRP007412_testis	0.00 RPM	1.55 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_2165 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2165 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1828
Pan troglodytes	retro_ptro_1165
Pongo abelii	retro_pabe_1498

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000017997	1 retrocopy	retro_etel_2100,
Homo sapiens	ENSG00000130748	1 retrocopy	retro_hsap_1828,
Gorilla gorilla	ENSGGOG00000013410	1 retrocopy	retro_ggor_2165 ,
Oryctolagus cuniculus	ENSOCUG00000023097	1 retrocopy	retro_ocun_1750,
Pongo abelii	ENSPPYG00000010166	1 retrocopy	retro_pabe_1498,
Pan troglodytes	ENSPTRG00000011200	1 retrocopy	retro_ptro_1165,
Rattus norvegicus	ENSRNOG00000015304	1 retrocopy	retro_rnor_1176,