RetrogeneDB ID: retro_ggor_880

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:62755325..62755650(-)
• Located in intron of: ENSGGOG00000006089

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPS25
• Ensembl ID: ENSGGOG00000011005
• Aliases: None
• Description: None

Sequence

>retro_ggor_880
CCTTGGATGCAGATCATGATGTTTAAGAACACAATACCATTACCCTTCCTACAATTCTATTTATATTATGAAGAGCATGT
CCTGGTGGATATAGAGATCAAGATGAATAAGGAGATTATGGAACACATCAAAAAAATCGTGGGGAAGAATGAGGACACAA
GAAAGGAGAGCAGGAGAAAAAGCAGCTCTCTCACCGAGCTCATTTTGGCCTTCAAAGTAGTTCTGATGGGAATCTACCTG
TGAAGTTAAAGGGCAGGTGCCCTATCCGGGCCTAATGCATTAGGAGAAGACAGGGAAGTACAAAGCAACACTGAAAGCCA
GTGCC

Alignment

ORF - retro_ggor_880 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.16 %
• Parental protein coverage: 64.74 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PWVQIMMFKNMTPSPFLRFYLDSGEQVLVDVETKSNKEIMEHIRKILGKNEETLRE-EEEEKKQLSHPAN
          PW.QIMMFKN..P.PFL.FYL...E.VLVD.E.K.NKEIMEHI.KI.GKNE.T..E.E.E.KKQLSH.A.
Retrocopy PWMQIMMFKNTIPLPFLQFYLYYEEHVLVDIEIKMNKEIMEHIKKIVGKNEDTRKE<EQE-KKQLSHRAH

Parental  FG-PRKYCLRECICEVEGQVPCPSLVPLPKEMRGKYKAALKADA
          FG.P.K....E..CEV.GQVP.P.L.....E..GKYKA.LKA.A
Retrocopy FG<PSK*F*WESTCEVKGQVPYPGL--MH*EKTGKYKATLKASA

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	28.24 RPM
SRP007412_cerebellum	0.00 RPM	19.86 RPM
SRP007412_heart	0.03 RPM	19.11 RPM
SRP007412_kidney	0.04 RPM	52.38 RPM
SRP007412_liver	0.16 RPM	28.41 RPM
SRP007412_testis	0.21 RPM	44.65 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_880 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_880 has 5 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1127
Pan troglodytes	retro_ptro_678
Pongo abelii	retro_pabe_932
Macaca mulatta	retro_mmul_874
Callithrix jacchus	retro_cjac_3303

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017160	1 retrocopy	retro_cjac_3303,
Homo sapiens	ENSG00000131368	1 retrocopy	retro_hsap_1127,
Gorilla gorilla	ENSGGOG00000011005	1 retrocopy	retro_ggor_880 ,
Latimeria chalumnae	ENSLACG00000009006	1 retrocopy	retro_lcha_49,
Macaca mulatta	ENSMMUG00000005157	2 retrocopies	retro_mmul_1946, retro_mmul_874,
Nomascus leucogenys	ENSNLEG00000005218	1 retrocopy	retro_nleu_184,
Pongo abelii	ENSPPYG00000013409	1 retrocopy	retro_pabe_932,
Pelodiscus sinensis	ENSPSIG00000008882	1 retrocopy	retro_psin_36,
Pan troglodytes	ENSPTRG00000014658	1 retrocopy	retro_ptro_678,
Rattus norvegicus	ENSRNOG00000010912	1 retrocopy	retro_rnor_1184,
Ictidomys tridecemlineatus	ENSSTOG00000027997	1 retrocopy	retro_itri_984,