RetrogeneDB ID: retro_ggor_252

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:72068074..72068368(+)
• Located in intron of: ENSGGOG00000015111

Retrocopy information

• Ensembl ID: ENSGGOG00000026287
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PIN1
• Ensembl ID: ENSGGOG00000006008
• Aliases: None
• Description: None

Sequence

>retro_ggor_252
AGCCAGTCAAGGCGGCCCTCCACCTGGCGGCAGGAAATCACCCAGACCAAGGAGGAGGCCCTGGAGCTGATCAGCGGCTA
CATCCAGAAGATCAAGGCAGCAGAGAAGGACTTTGAGTCTCTGGCCTCACAATTCAGCGACTGCAGCTCGGCCAAGGCCA
GGGGAGACCTGGGTGCCTTCAGCAAAGGTCAGATGCAGAAGCCATTTGAAGACCCCTGGTTTGCGCGGTGGACGGGGGAG
ATGAGCGGGACAGTGTTCACGGATTCCGGCATCCACGTCATTGTCCGCACGGAG

Alignment

ORF - retro_ggor_252 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.85 %
• Parental protein coverage: 60.74 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SQSRRPSSWRQEKITRTKEEALELINGYIQKIKSGEEDFESLASQFSDCSSAKARGDLGAFSRGQMQKPF
          SQSRRPS.WRQE.IT.TKEEALELI.GYIQKIK..E.DFESLASQFSDCSSAKARGDLGAFS.GQMQKPF
Retrocopy SQSRRPSTWRQE-ITQTKEEALELISGYIQKIKAAEKDFESLASQFSDCSSAKARGDLGAFSKGQMQKPF

Parental  EDASFALRTGEMSGPVFTDSGIHIILRTE
          ED..FA..TGEMSG.VFTDSGIH.I.RTE
Retrocopy EDPWFARWTGEMSGTVFTDSGIHVIVRTE

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	77.83 RPM
SRP007412_cerebellum	0.04 RPM	51.57 RPM
SRP007412_heart	0.00 RPM	24.55 RPM
SRP007412_kidney	0.00 RPM	17.26 RPM
SRP007412_liver	0.00 RPM	14.32 RPM
SRP007412_testis	0.21 RPM	44.44 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_252 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_252 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_168
Pan troglodytes	retro_ptro_159
Pongo abelii	retro_pabe_462
Callithrix jacchus	retro_cjac_2925

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006079	1 retrocopy	retro_cjac_2925,
Homo sapiens	ENSG00000127445	1 retrocopy	retro_hsap_168,
Gorilla gorilla	ENSGGOG00000006008	1 retrocopy	retro_ggor_252 ,
Microcebus murinus	ENSMICG00000001996	1 retrocopy	retro_mmur_1157,
Mus musculus	ENSMUSG00000032171	1 retrocopy	retro_mmus_2072,
Nomascus leucogenys	ENSNLEG00000011999	1 retrocopy	retro_nleu_980,
Pongo abelii	ENSPPYG00000009537	1 retrocopy	retro_pabe_462,
Pan troglodytes	ENSPTRG00000010452	1 retrocopy	retro_ptro_159,
Rattus norvegicus	ENSRNOG00000020474	1 retrocopy	retro_rnor_1220,
Tupaia belangeri	ENSTBEG00000003793	1 retrocopy	retro_tbel_1546,