RetrogeneDB ID: retro_ggor_2012

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:199921022..199921306(-)
• Located in intron of: ENSGGOG00000022834

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000227810
• Ensembl ID: ENSGGOG00000027883
• Aliases: None
• Description: None

Sequence

>retro_ggor_2012
GCGCAGGGTGCAGAGGCATCAGTTGGGCATCAACAGCCACCGTGAGGGAGGAACTGGTCGGCACGCGGGCTGCCTGGAGG
CAGGCAGGGACTTGGCCCTGGGAGGCCCCGATGGGGGCGAGAGCTGGGCCTGGAGAGGCCCCTGGGAGACAAGAGCGGGG
CCTGCAGAGGCTGTTCTACAGCCAGAGCTGGGCCTGTACAGGCCACCGAGAGGCAGTAGGCGGGCGCGAAGAACTTGGCT
GGAGAAAGTTCGGGGCCTACAAAGGCGGTTGGGAGCTGGGCAGG

Alignment

ORF - retro_ggor_2012 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.71 %
• Parental protein coverage: 68.66 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AVASQGSLQAQLSPHHRNWSARGLPGGRQGLGPGR-PRWG-SWAWRGPWEARAGPAEAVLQPLLGLYHQE
          A.....S...Q..P..RNWSARGLPGGRQGLGPGR.P..G.SWAWRGPWE.RAGPAEAVLQP.LGLY...
Retrocopy AQGAEASVGHQQPP*GRNWSARGLPGGRQGLGPGR>PDGGESWAWRGPWETRAGPAEAVLQPELGLYRPP

Parental  AGS-GPSE-LGWRTFGAYKAGQELSQ
          .GS.G..E.LGWR.FGAYK.G.EL..
Retrocopy RGS>GGREELGWRKFGAYKGGWELGR

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	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	0.00 RPM
SRP007412_testis	0.00 RPM	0.00 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_2012 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2012 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000032565	2 retrocopies	retro_cjac_2871, retro_cjac_3981,
Gorilla gorilla	ENSGGOG00000027883	1 retrocopy	retro_ggor_2012 ,
Pongo abelii	ENSPPYG00000019993	5 retrocopies	retro_pabe_1730, retro_pabe_3198, retro_pabe_3218, retro_pabe_3220, retro_pabe_3562,