RetrogeneDB ID: retro_ggor_2074

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:163197311..163198070(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025738
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: FAM192A
• Ensembl ID: ENSGGOG00000003938
• Aliases: None
• Description: None

Sequence

>retro_ggor_2074
ATGGATGGAGGGGATGATGGTAACCTTGTTATCAAAAAGAGGTTTGTGTCTGAGGCAGAACTAGATGAACGGTGCAAAAG
GAGGCAAGAAGAATGGGAGAAAGTTCAAAAACCTGAAGATTCAGAAGAATGTCCAGAGGAGGTTTATGACCCTCGATCTC
TATATGAAAGGCTACAGGAACAGAAGGACAGGAAGCAGCAGGAGTATGAGGAACAGTTCAAATTCAAAAACATGGTAAGA
GGCTTAGATGCAGATGAGACCAACTTCCTTGATGAGGTTTCTCGACAGCAGGAACTAATAGAAAAGCAACAAAGAGAAGA
ACTGAAAGAACTGAAGGAATACAGAAATAACCTCAAGAAGGTTGGAATTTCTCAAGAGAACAAGAAGGAAGTGGAAAAGA
AACTGACTGTGAAGCCCTTAGAAACCAAGAACAAGTTCTCCCAGGTGAAGCTGTTGGCAGGAGCTGTGAAGCGTAAGAGC
TCAGAGACTGACAACAGTGTGAAAAGACTGAAACCGGTCCCTGAGCCAGATGACAAGAATCAAGAGCCCTCATCCTACAA
GTCTCTCAGAAACACCTCCCTGAGTGGCCCCTCCATCCACTGCCCCTCTGCTGCAGTCTGTATCAGCATCCTCCCAGGCC
TGGGCGCCTACTCTGGGAGCAGCGACTCTGAGTCCAGCGCAGACAGTGAAGGCACCATCAATGCCACCGGAAAGATTGTC
TCCGCTATCTTCCAAACCAATACCTTCCTTGAGGCCCCT

Alignment

ORF - retro_ggor_2074 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.91 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDGGDDGNLVIKKRFVSEAELDERRKRRQEEWEKVRKPEDPEECPEEVYDPRSLYERLQEQKDRKQQEYE
          MDGGDDGNLVIKKRFVSEAELDER.KRRQEEWEKV.KPED.EECPEEVYDPRSLYERLQEQKDRKQQEYE
Retrocopy MDGGDDGNLVIKKRFVSEAELDERCKRRQEEWEKVQKPEDSEECPEEVYDPRSLYERLQEQKDRKQQEYE

Parental  EQFKFKNMVRGLDEDETNFLDEVSRQQELIEKQRREEELKELKEYRNNLKKVGISQENKKEVEKKLTVKP
          EQFKFKNMVRGLD.DETNFLDEVSRQQELIEKQ.R.EELKELKEYRNNLKKVGISQENKKEVEKKLTVKP
Retrocopy EQFKFKNMVRGLDADETNFLDEVSRQQELIEKQQR-EELKELKEYRNNLKKVGISQENKKEVEKKLTVKP

Parental  IETKNKFSQAKLLAGAVKHKSSESGNSVKRLKPDPEPDDKNQEPSSCKSLGNTSLSGPSIHCPSAAVCIG
          .ETKNKFSQ.KLLAGAVK.KSSE..NSVKRLKP.PEPDDKNQEPSS.KSL.NTSLSGPSIHCPSAAVCI.
Retrocopy LETKNKFSQVKLLAGAVKRKSSETDNSVKRLKPVPEPDDKNQEPSSYKSLRNTSLSGPSIHCPSAAVCIS

Parental  ILPGLGAYSGSSDSESSSDSEGTINATGKIVSSIFRTNTFLEAP
          ILPGLGAYSGSSDSESS.DSEGTINATGKIVS.IF.TNTFLEAP
Retrocopy ILPGLGAYSGSSDSESSADSEGTINATGKIVSAIFQTNTFLEAP

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	105.45 RPM
SRP007412_cerebellum	0.04 RPM	67.33 RPM
SRP007412_heart	0.00 RPM	17.23 RPM
SRP007412_kidney	0.04 RPM	46.45 RPM
SRP007412_liver	0.03 RPM	28.99 RPM
SRP007412_testis	0.41 RPM	75.21 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_2074 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2074 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2994
Pan troglodytes	retro_ptro_2025
Pongo abelii	retro_pabe_2480

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Parental genes homology:

Parental genes homology involve 15 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002242	1 retrocopy	retro_btau_1133,
Cavia porcellus	ENSCPOG00000001392	1 retrocopy	retro_cpor_122,
Equus caballus	ENSECAG00000009324	1 retrocopy	retro_ecab_710,
Echinops telfairi	ENSETEG00000014379	1 retrocopy	retro_etel_930,
Homo sapiens	ENSG00000172775	1 retrocopy	retro_hsap_2994,
Gorilla gorilla	ENSGGOG00000003938	1 retrocopy	retro_ggor_2074 ,
Macaca mulatta	ENSMMUG00000013492	1 retrocopy	retro_mmul_189,
Mus musculus	ENSMUSG00000031774	1 retrocopy	retro_mmus_428,
Nomascus leucogenys	ENSNLEG00000002716	1 retrocopy	retro_nleu_745,
Ochotona princeps	ENSOPRG00000006909	2 retrocopies	retro_opri_175, retro_opri_579,
Pongo abelii	ENSPPYG00000007382	1 retrocopy	retro_pabe_2480,
Pan troglodytes	ENSPTRG00000008148	1 retrocopy	retro_ptro_2025,
Tarsius syrichta	ENSTSYG00000013300	1 retrocopy	retro_tsyr_884,
Tursiops truncatus	ENSTTRG00000012791	1 retrocopy	retro_ttru_1884,
Vicugna pacos	ENSVPAG00000005973	1 retrocopy	retro_vpac_321,