RetrogeneDB ID: retro_ggor_2738

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:79093062..79093519(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: OCIAD2
• Ensembl ID: ENSGGOG00000013778
• Aliases: None
• Description: None

Sequence

>retro_ggor_2738
ATGCCCCCAATGTCTACTCATGGAAACCAAGAGAAAGGTCCCCATTTGCCACCACCAAGCAAGCAGAGACTGTTGTTTTA
TCCAAAATCAAACTGCACATCCACAGAGGAGAGATTTCAAACATTATAAGAGGATGTCAAGAAGAAAGTTTCTGGAAGAG
AGTTCTGCCTTTTTCTCCTGTAAGCATGCTCGTCACCGAGGGACTAGTCTGCCAAGGTTATTTAGCAGTTAATCCAAGAT
TTGGATCATTGCCTAAAGTTACACTTGTTGGTATCTTGGGATTGGCCTTGGAAAGGTATCATACATAAGAGTATGCCAGA
GTAAATTCCATATCTTTGAAGATCAGCTCCATGGGGCTGATTTTGGTCCACAGCAGAACAGGCACTGATTGCTTACCTGT
GAAGAATGCAAAATAAAGCATGGATTCAATGAGAAGAGAAGTTCACAGCCTTTGGCT

Alignment

ORF - retro_ggor_2738 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.48 %
• Parental protein coverage: 99.35 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MASASARGNQDKDPNFPPPSKQSLLFCPKS-KLHIHRAEISKIMRECQEESFWKRALPFSLVSMLVTQGL
          M...S..GNQ.K.P..PPPSKQ.LLF.PKS.KLHIHR.EIS.I.R.CQEESFWKR.LPFS.VSMLVT.GL
Retrocopy MPPMSTHGNQEKGPHLPPPSKQRLLFYPKS<KLHIHRGEISNIIRGCQEESFWKRVLPFSPVSMLVTEGL

Parental  VYQGYLAANSRFGSLPKVALAGL-LGFGLGKVSYIGVCQSKFHFFEDQLRGAGFGPQHNRHCLLTCEECK
          V.QGYLA.N.RFGSLPKV.L.G..LG.GLGKVSYI.VCQSKFH.FEDQL.GA.FGPQ.NRH.LLTCEECK
Retrocopy VCQGYLAVNPRFGSLPKVTLVGI<LGIGLGKVSYIRVCQSKFHIFEDQLHGADFGPQQNRH*LLTCEECK

Parental  IKHGLSEKGDSQPSA
          IKHG..EK..SQP.A
Retrocopy IKHGFNEKRSSQPLA

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	13.33 RPM
SRP007412_cerebellum	0.00 RPM	1.65 RPM
SRP007412_heart	0.00 RPM	3.06 RPM
SRP007412_kidney	0.00 RPM	98.79 RPM
SRP007412_liver	0.03 RPM	26.67 RPM
SRP007412_testis	0.00 RPM	4.14 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_2738 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2738 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018637	1 retrocopy	retro_cjac_1505,
Erinaceus europaeus	ENSEEUG00000006759	1 retrocopy	retro_eeur_504,
Homo sapiens	ENSG00000145247	1 retrocopy	retro_hsap_4082,
Gorilla gorilla	ENSGGOG00000013778	1 retrocopy	retro_ggor_2738 ,
Microcebus murinus	ENSMICG00000006147	1 retrocopy	retro_mmur_1402,
Macaca mulatta	ENSMMUG00000014869	1 retrocopy	retro_mmul_2353,
Monodelphis domestica	ENSMODG00000025531	1 retrocopy	retro_mdom_1006,
Nomascus leucogenys	ENSNLEG00000017430	1 retrocopy	retro_nleu_2048,
Oryctolagus cuniculus	ENSOCUG00000007907	2 retrocopies	retro_ocun_1734, retro_ocun_1780,
Otolemur garnettii	ENSOGAG00000011039	1 retrocopy	retro_ogar_561,
Pongo abelii	ENSPPYG00000014722	1 retrocopy	retro_pabe_3350,
Pan troglodytes	ENSPTRG00000016048	1 retrocopy	retro_ptro_2768,
Vicugna pacos	ENSVPAG00000011765	1 retrocopy	retro_vpac_331,