RetrogeneDB ID: retro_ggor_970

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:1163069..1163890(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000026768
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ESRRA
• Ensembl ID: ENSGGOG00000001333
• Aliases: None
• Description: None

Sequence

>retro_ggor_970
GGAGCGCGCCTGGACCGCGTCCGGGGTGGGCGGGAGAAGTACAAGTGGCACCAGAGGTGGACCCGCTGCCCTTCCCGGGC
CCCTTCCCTGCTGGGCCCCTGGCAGTCGCTGGAGGCCCCCGGACGACAGGCCCAGTGAATGCACTGGTGTCTCATCTAAT
GGTGGTTGAGCCTGAGAAGCTCTATGCCTTGCCCGACCCTGCTGGCCCTGATGGGCACCTTCCAGCCGTGGCTACCCTCT
GTGACCTCTTTGACCGAGAGATCGTGGTCACCATCAGCTGGGCCAAGAGCATCCCAGGCTTCTCATCGCTGTCGCTGTCT
GACCAGATGTCAGTACTGCACAACGTGTGGATGGAGGTGCTGGTGCCAGGTGTGGCCCAGCGCTCACTGCCACTGCAGGA
TGAGCTGGCCTTCGCTGAGGACTTAGTCCTGGATGAAGAGGGGGCACGGGCAGCTGGCCTGGGGGAACTGGGGGTTGCCC
TGCTGCAACTGGTGCGGCGGCTGCAGGCCCTGCGGCTGGAGCGAGGGGAGTACGTTCTACTGAAGGCCCTGGCCCTTGCC
AATTCAGACTCTGTGCACATCGAAGATGCCGAGGCTGTGGAGCAGCTGCCAGAAGCTCTGCACGAGGCCCTGCTGGAGTA
CGAAGCCGGCCGGGCTGACCCCTGTGGGGGTGCTGAGCAGCTGCCAGGCAGGCTGCTGCTCACGCCACCGCTCTTCTGCC
AGACAGCGGGCAAAGTGCTGGCCCATTTCTATGGGGTGAAGCTGGAGGGCAAGGTGCCCATGCACAAGCTGTTCTTGGAG
ATGCTCGAGGCCATGATGGAC

Alignment

ORF - retro_ggor_970 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.25 %
• Parental protein coverage: 65.25 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GVRLDRVRGGRQKYKRR-PEVDPLPFPGPFPAGPLAVAGGPRKTAAPVNALVSHLLVVEPEKLYAMPDPA
          G.RLDRVRGGR.KYK...PEVDPLPFPGPFPAGPLAVAGGPR.T..PVNALVSHL.VVEPEKLYA.PDPA
Retrocopy GARLDRVRGGREKYKWH<PEVDPLPFPGPFPAGPLAVAGGPR-TTGPVNALVSHLMVVEPEKLYALPDPA

Parental  GPDGHLPAVATLCDLFDREIVVTISWAKSIPGFSSLSLSDQMSVLQSVWMEVLVLGVAQRSLPLQDELAF
          GPDGHLPAVATLCDLFDREIVVTISWAKSIPGFSSLSLSDQMSVL..VWMEVLV.GVAQRSLPLQDELAF
Retrocopy GPDGHLPAVATLCDLFDREIVVTISWAKSIPGFSSLSLSDQMSVLHNVWMEVLVPGVAQRSLPLQDELAF

Parental  AEDLVLDEEGARAAGLGELGAALLQLVRRLQALRLEREEYVLLKALALANSDSVHIEDAEAVEQLREAPH
          AEDLVLDEEGARAAGLGELG.ALLQLVRRLQALRLER.EYVLLKALALANSDSVHIEDAEAVEQL.EA.H
Retrocopy AEDLVLDEEGARAAGLGELGVALLQLVRRLQALRLERGEYVLLKALALANSDSVHIEDAEAVEQLPEALH

Parental  EALLEYEAGRAGTGGGAERRRPCRLLLTLPLLHQTAGKVLAHFYGVKLEGKVPMHKLFLEMLEAMMD
          EALLEYEAGRA...GGAE...P.RLLLT.PL..QTAGKVLAHFYGVKLEGKVPMHKLFLEMLEAMMD
Retrocopy EALLEYEAGRADPCGGAE-QLPGRLLLTPPLFCQTAGKVLAHFYGVKLEGKVPMHKLFLEMLEAMMD

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	0.14 RPM	17.70 RPM
SRP007412_cerebellum	0.39 RPM	29.08 RPM
SRP007412_heart	0.66 RPM	41.96 RPM
SRP007412_kidney	0.45 RPM	35.25 RPM
SRP007412_liver	0.40 RPM	20.36 RPM
SRP007412_testis	0.10 RPM	4.35 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_970 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_970 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1237
Pan troglodytes	retro_ptro_851

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018030	3 retrocopies	retro_cjac_3845, retro_cjac_3982, retro_cjac_4023,
Echinops telfairi	ENSETEG00000000262	1 retrocopy	retro_etel_733,
Homo sapiens	ENSG00000173153	2 retrocopies	retro_hsap_1171, retro_hsap_1237,
Gorilla gorilla	ENSGGOG00000001333	1 retrocopy	retro_ggor_970 ,
Macaca mulatta	ENSMMUG00000017803	1 retrocopy	retro_mmul_1275,
Nomascus leucogenys	ENSNLEG00000004971	2 retrocopies	retro_nleu_2855, retro_nleu_2856,
Pongo abelii	ENSPPYG00000003107	1 retrocopy	retro_pabe_63,
Pan troglodytes	ENSPTRG00000003833	1 retrocopy	retro_ptro_851,