RetrogeneDB ID: retro_ggor_1704

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 2a:99756171..99756424(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM183A
• Ensembl ID: ENSGGOG00000010892
• Aliases: None
• Description: None

Sequence

>retro_ggor_1704
ATGGTGGGACACCCCAGGGAGAAGGTGATCCAGGATGAGGTCCATCAGAACCAGATCTTGCAGGAGCTGTACCTCAAAGG
GCTACCAGCCCAGAACGTCTATGCGCGGTATCACGTGAACCCCTCCACGAGGTCCACAGATCACCAGGAAGCCCATGTCT
TCGCATGGTAACCTGGAGGAGCCTGGAGAGGCCAGGTTTCGGAATCTCATTCACCACACTGCCCAGGGACCAAGGAAGAG
GGACCCAGACACA

Alignment

ORF - retro_ggor_1704 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.97 %
• Parental protein coverage: 56.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAGHPKEKVIPDEVHQNQILRELYLKELRTQKLYTQYHVN-PLRKIH-TVTRKPMSWHDNLEEPADARFL
          M.GHP.EKVI.DEVHQNQIL.ELYLK.L..Q..Y..YHVN.PL...H...TRKPMS.H.NLEEP..ARF.
Retrocopy MVGHPREKVIQDEVHQNQILQELYLKGLPAQNVYARYHVN<PLHEVH<QITRKPMSSHGNLEEPGEARFR

Parental  NLIHHAAQGPRKKYPET
          NLIHH.AQGPRK..P.T
Retrocopy NLIHHTAQGPRKRDPDT

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	0.34 RPM	0.05 RPM
SRP007412_cerebellum	0.20 RPM	0.08 RPM
SRP007412_heart	0.09 RPM	0.00 RPM
SRP007412_kidney	0.08 RPM	0.08 RPM
SRP007412_liver	0.03 RPM	0.00 RPM
SRP007412_testis	6.32 RPM	7.56 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_1704 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1704 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000005339	1 retrocopy	retro_cfam_671,
Callithrix jacchus	ENSCJAG00000003315	1 retrocopy	retro_cjac_323,
Homo sapiens	ENSG00000186973	1 retrocopy	retro_hsap_1,
Gorilla gorilla	ENSGGOG00000010892	2 retrocopies	retro_ggor_1704 , retro_ggor_69,
Nomascus leucogenys	ENSNLEG00000013230	3 retrocopies	retro_nleu_147, retro_nleu_2537, retro_nleu_2865,
Pongo abelii	ENSPPYG00000001457	1 retrocopy	retro_pabe_48,
Pan troglodytes	ENSPTRG00000000624	1 retrocopy	retro_ptro_22,