RetrogeneDB ID: retro_ggor_3

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 22:8680551..8680782(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024213
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ENSG00000213145
• Ensembl ID: ENSGGOG00000027381
• Aliases: None
• Description: None

Sequence

>retro_ggor_3
ATGCCCAAGTGCCCCGCGTGCGACAAGGTGTACTTCGCCGAGAGGGTGACCTCTCTAGGCAAGGACTGGCATCGGCCCTG
CCTGAAGTGTGAGAAATGTGGGAAGACGCTGACTTCCGGGGGCCACGCTGAGCATGAAGGCAAACCCTACGGCAACCACC
CCTGCTACGCCGCCATGTTTGGGCCTAAAGGCTTTGGGCGGGGTGGACCCGAGAGCCATACTTTCAAGTAA

Alignment

ORF - retro_ggor_3 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.85 %
• Parental protein coverage: 90.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPKCPKCNKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYAAMFGPKG
          MPKCP.C.K.VYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPY.NHPCYAAMFGPKG
Retrocopy MPKCPACDK-VYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYGNHPCYAAMFGPKG

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	0.77 RPM	2.97 RPM
SRP007412_cerebellum	0.24 RPM	1.58 RPM
SRP007412_heart	1.91 RPM	17.54 RPM
SRP007412_kidney	0.65 RPM	6.38 RPM
SRP007412_liver	0.66 RPM	5.80 RPM
SRP007412_testis	0.41 RPM	1.76 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_3 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2550
Pan troglodytes	retro_ptro_43

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Parental genes homology:

Parental genes homology involve 14 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000047229	1 retrocopy	retro_btau_488,
Callithrix jacchus	ENSCJAG00000019788	1 retrocopy	retro_cjac_163,
Dipodomys ordii	ENSDORG00000001365	1 retrocopy	retro_dord_70,
Homo sapiens	ENSG00000213145	1 retrocopy	retro_hsap_2550,
Gorilla gorilla	ENSGGOG00000026601	2 retrocopies	retro_ggor_1967, retro_ggor_1969,
Gorilla gorilla	ENSGGOG00000027381	1 retrocopy	retro_ggor_3 ,
Macropus eugenii	ENSMEUG00000001631	1 retrocopy	retro_meug_93,
Macaca mulatta	ENSMMUG00000007158	2 retrocopies	retro_mmul_1479, retro_mmul_553,
Pongo abelii	ENSPPYG00000006209	1 retrocopy	retro_pabe_114,
Pan troglodytes	ENSPTRG00000033768	1 retrocopy	retro_ptro_43,
Pteropus vampyrus	ENSPVAG00000014240	1 retrocopy	retro_pvam_1304,
Rattus norvegicus	ENSRNOG00000027990	2 retrocopies	retro_rnor_2590, retro_rnor_2599,
Sarcophilus harrisii	ENSSHAG00000000807	1 retrocopy	retro_shar_341,
Tursiops truncatus	ENSTTRG00000004063	1 retrocopy	retro_ttru_1367,