RetrogeneDB ID: retro_ggor_2846

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:34337918..34339123(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024027
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PTEN
• Ensembl ID: ENSGGOG00000000893
• Aliases: None
• Description: None

Sequence

>retro_ggor_2846
ACAGCCATCATCAAAGAGATCGTTAGCAGAAACGAAAGGAGATATCAAGAGGATGGATTCGACTTAGACTTGACCTATAT
TTATCTAAACATTATTACTATGGGATTTCCTGCAGAAAGACTTGAAGGCGTATACAGGAACAATATTGATGATGTAGTAA
GATTTTTGGATTCAAAGCATAAAAACCACTACAAGATATACAATCTTTGTGCTGAAAGACATTATGACACCGCCAAATTT
AATTGCAGAGTTGCACAATATCCTTTTGAAGACATAACCCACCACAGCTAGAACTTATCAAACCCTTTTGTGAAGATCTT
GACCAATGGCTAAGTGAAGATGACAATCATGTTGCAGCAATTCACTGTAAAGCTGGAAAGGGACGAACTGGTATAATGAT
TTATGCATATTTATTACATCGGGGCAAATTTTTAAAGGCACAAGAGGCCCTAGATTTCTCTGGGGAAGTAAGGACCAGAG
ACAAGAAGGGAGTAACTATTCCCAGTCAGAGGCGCTATGTGTATTATTATAGTTACCTGTTAAAGAATCATCTGGATTAT
AGACCAGTGGCACTGTTGTTTCACAAGATGATGTTTGAAACTATTCCAATGTTCAGTGGCGGAACTTGCAATCCTCAGTT
TGTGGTCTGCCAGCTAAAGGTGAAGATGTATTCCTCCAATTCAGGACCCACACGACGGGAGGACAAGTTCATGTATTTTG
AGTTCCCTCAGCTGTTACCTGTGTGTGGTGATATCAAAGTAGAGTTCTTCCACAAACAGAACAAGATGCTAAAAAAGGAC
AAAATGTTTCACTTTTGGGTAAATATATTCTTCATACCAGGACCAGAGGAAACCTCAGAAAAAGTAGAAAATGGAAGTCT
ATGTGATCAAGAAATTGATAGCATTTGCAGTATAGAGCGTGCAGATAATGACAAGGAGTATCTAGTACTTACTTTAACAA
AAAATGATCTTGATAAAGCAAATAAAGACAAAGCCAACCGACACTTTTCTCCAAATTTTAAGGTGAAGCTGTACTTCACA
AAAACAGTAGAGGAGCCGTCAAATCCAGAGGCTAGCAGTTCAACTTCTGTAACACCAGATGTTAGTGACAATGAACCTGA
TCATTATAGATATTCTGACACCACTGACTCTGATCCAGAGAATGAACCTTTTGATGAAGATCAGCATACACAAATTACAA
AAGTT

Alignment

ORF - retro_ggor_2846 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.27 %
• Parental protein coverage: 99.75 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TAIIKEIVSRNKRRYQEDGFDLDLTYIYPNIIAMGFPAERLEGVYRNNIDDVVRFLDSKHKNHYKIYNLC
          TAIIKEIVSRN.RRYQEDGFDLDLTYIY.NII.MGFPAERLEGVYRNNIDDVVRFLDSKHKNHYKIYNLC
Retrocopy TAIIKEIVSRNERRYQEDGFDLDLTYIYLNIITMGFPAERLEGVYRNNIDDVVRFLDSKHKNHYKIYNLC

Parental  AERHYDTAKFNCRVAQYPFED-HNPPQLELIKPFCEDLDQWLSEDDNHVAAIHCKAGKGRTGVMICAYLL
          AERHYDTAKFNCRVAQYPFED.HNPPQLELIKPFCEDLDQWLSEDDNHVAAIHCKAGKGRTG.MI.AYLL
Retrocopy AERHYDTAKFNCRVAQYPFED<HNPPQLELIKPFCEDLDQWLSEDDNHVAAIHCKAGKGRTGIMIYAYLL

Parental  HRGKFLKAQEALDFYGEVRTRDKKGVTIPSQRRYVYYYSYLLKNHLDYRPVALLFHKMMFETIPMFSGGT
          HRGKFLKAQEALDF.GEVRTRDKKGVTIPSQRRYVYYYSYLLKNHLDYRPVALLFHKMMFETIPMFSGGT
Retrocopy HRGKFLKAQEALDFSGEVRTRDKKGVTIPSQRRYVYYYSYLLKNHLDYRPVALLFHKMMFETIPMFSGGT

Parental  CNPQFVVCQLKVKIYSSNSGPTRREDKFMYFEFPQPLPVCGDIKVEFFHKQNKMLKKDKMFHFWVNTFFI
          CNPQFVVCQLKVK.YSSNSGPTRREDKFMYFEFPQ.LPVCGDIKVEFFHKQNKMLKKDKMFHFWVN.FFI
Retrocopy CNPQFVVCQLKVKMYSSNSGPTRREDKFMYFEFPQLLPVCGDIKVEFFHKQNKMLKKDKMFHFWVNIFFI

Parental  PGPEETSEKVENGSLCDQEIDSICSIERADNDKEYLVLTLTKNDLDKANKDKANRYFSPNFKVKLYFTKT
          PGPEETSEKVENGSLCDQEIDSICSIERADNDKEYLVLTLTKNDLDKANKDKANR.FSPNFKVKLYFTKT
Retrocopy PGPEETSEKVENGSLCDQEIDSICSIERADNDKEYLVLTLTKNDLDKANKDKANRHFSPNFKVKLYFTKT

Parental  VEEPSNPEASSSTSVTPDVSDNEPDHYRYSDTTDSDPENEPFDEDQHTQITKV
          VEEPSNPEASSSTSVTPDVSDNEPDHYRYSDTTDSDPENEPFDEDQHTQITKV
Retrocopy VEEPSNPEASSSTSVTPDVSDNEPDHYRYSDTTDSDPENEPFDEDQHTQITKV

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	0.72 RPM	16.16 RPM
SRP007412_cerebellum	1.14 RPM	17.37 RPM
SRP007412_heart	0.13 RPM	2.66 RPM
SRP007412_kidney	0.29 RPM	15.05 RPM
SRP007412_liver	0.11 RPM	13.53 RPM
SRP007412_testis	0.83 RPM	58.02 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_2846 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2846 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000009252	1 retrocopy	retro_chof_578,
Homo sapiens	ENSG00000171862	1 retrocopy	retro_hsap_4245,
Gorilla gorilla	ENSGGOG00000000893	1 retrocopy	retro_ggor_2846 ,
Nomascus leucogenys	ENSNLEG00000012141	1 retrocopy	retro_nleu_1280,
Pongo abelii	ENSPPYG00000002448	1 retrocopy	retro_pabe_3393,
Sarcophilus harrisii	ENSSHAG00000003709	1 retrocopy	retro_shar_828,
Sus scrofa	ENSSSCG00000010440	2 retrocopies	retro_sscr_236, retro_sscr_237,