RetrogeneDB ID: retro_ggor_2561

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:149977922..149978381(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ETF1
• Ensembl ID: ENSGGOG00000000657
• Aliases: None
• Description: None

Sequence

>retro_ggor_2561
CGTTTTGCCCATTTAAAAATGGAAAAAGCGACATAACTATGTTCAGAAAGTAGCAGAGACTGCTGTGCAGCTATTTCTGG
GGACAAAGTGAATGTGGCTGGTCTAGTTTTAGCTGGATCTGCTGACTTTGAACTAAGTCAATCTGATATGTTTGATCAGA
GGTTACAATCGAAAGTTTTAAAATTAGTTGATATATCCTATGGTGGTGAAAATGGATTCAATCAAGCTACTGAGTTATCT
ACTGAAGTCCTCTCCGAAGTGAAATTCATTCAAGAAAAGAAATCAATAGAACGATACTTTGATGAAATCACCCAGGACAC
GCGAAAGTACTGTTTTGGCGTTGAAGATACACTAAAGACTTTGGAAAAGGGAGCTGTAGAAATTCTAATGGTCTATGAAA
ATCTGGATATAATGAGATATGTTCTTTATTGCCAAGGCACAGAAAAGGAGAAAATTCTC

Alignment

ORF - retro_ggor_2561 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.71 %
• Parental protein coverage: 60.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  RFARLRMEK-RHNYVRKVAETAVQLFISGDK-VNVAGLVLAGSADFKTELSQSDMFDQRLQSKVLKLVDI
          RFA.L.MEK.RHNYV.KVAETAVQLF..G.K.VNVAGLVLAGSADF..ELSQSDMFDQRLQSKVLKLVDI
Retrocopy RFAHLKMEK>RHNYVQKVAETAVQLFL-GTK<VNVAGLVLAGSADF--ELSQSDMFDQRLQSKVLKLVDI

Parental  SYGGENGFNQAIELSTEVLSNVKFIQEKKLIGRYFDEISQDTGKYCFGVEDTLKALEMGAVEILIVYENL
          SYGGENGFNQA.ELSTEVLS.VKFIQEKK.I.RYFDEI.QDT.KYCFGVEDTLK.LE.GAVEIL.VYENL
Retrocopy SYGGENGFNQATELSTEVLSEVKFIQEKKSIERYFDEITQDTRKYCFGVEDTLKTLEKGAVEILMVYENL

Parental  DIMRYVLHCQGTEEEKIL
          DIMRYVL.CQGTE.EKIL
Retrocopy DIMRYVLYCQGTEKEKIL

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	11.08 RPM
SRP007412_cerebellum	0.20 RPM	6.89 RPM
SRP007412_heart	0.09 RPM	3.38 RPM
SRP007412_kidney	0.33 RPM	22.53 RPM
SRP007412_liver	0.24 RPM	10.45 RPM
SRP007412_testis	0.73 RPM	45.27 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_2561 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2561 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000001282	1 retrocopy	retro_cfam_99,
Callithrix jacchus	ENSCJAG00000006776	2 retrocopies	retro_cjac_2316, retro_cjac_4133,
Dasypus novemcinctus	ENSDNOG00000010830	3 retrocopies	retro_dnov_1925, retro_dnov_2504, retro_dnov_610,
Equus caballus	ENSECAG00000013041	1 retrocopy	retro_ecab_740,
Echinops telfairi	ENSETEG00000007362	2 retrocopies	retro_etel_1237, retro_etel_1400,
Gorilla gorilla	ENSGGOG00000000657	4 retrocopies	retro_ggor_2326, retro_ggor_2561 , retro_ggor_2562, retro_ggor_2919,
Macaca mulatta	ENSMMUG00000005871	2 retrocopies	retro_mmul_1658, retro_mmul_718,
Mustela putorius furo	ENSMPUG00000009338	1 retrocopy	retro_mputfur_1448,
Oryctolagus cuniculus	ENSOCUG00000006650	3 retrocopies	retro_ocun_1188, retro_ocun_1614, retro_ocun_462,
Rattus norvegicus	ENSRNOG00000019450	1 retrocopy	retro_rnor_2935,