RetrogeneDB ID: retro_ggor_2771

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:5127773..5128444(+)
• Located in intron of: ENSGGOG00000007243

Retrocopy information

• Ensembl ID: ENSGGOG00000013130
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: IGHE
• Ensembl ID: ENSGGOG00000028496
• Aliases: None
• Description: None

Sequence

>retro_ggor_2771
CAAACGCTCACCTGCAGCGTGGCACACACTCTGTGGTCCGCAGACCAGGTCAGTACCTTCAGCGTCTACTCCAGGGACTT
CACCCTCCCCACCGTGAAGATCTTACAGTCCTCCTGTGATGGCAGCGGACACTTACCCCCGACCATCCAGTTCCTGTGCC
TCATCTCCGGGTACACCCAGGTGCCATCAGCATCACCTGGCTGGAGGATGGGCAGGTCGTGGATGTGAACTGGTCCATCG
CCTCTCCCATGCTGGAGGATGAGCTGGCCTCCACACAAAGCAAGCTCACCCTCACCCAGAAGCGCTGGCTGCCCGACCAC
ACCTACATCTGCCAGGTCACCTATCAAGGTAACACCTTTGAGGACAGTGCCAAGAAGCGTGCAGATTCTAACCCGCAGGG
GGTGAGCACCTACCTGAGCCGGTCCAGCCCCTTCTACCTGTTCATCCGCAAGTTGCCCACAATCACCTGTCTGGTGGTGG
ACCTGGCACCCAGCAGGGAGAACGTGAAGCTGACTTGGTCCCAGGCCAGTGGGAAGTCTGTGGCTCAGGTCATCCTAAGG
CAAGAGAAGCAGTGCAATGGCATGTTCACCATCACGTCCACCCTGCTGGTGGGCACCAGAGACTGGATCAAGGGGGAGAC
CTACCAGTGCAGGGTGACCCACACCCACCTG

Alignment

ORF - retro_ggor_2771 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.01 %
• Parental protein coverage: 51.6 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QMFTCHVAHTPSSADWVDNKTFGVCSRDFTPPTVKILQSSCDGGGHLPPTIQLLCLVSGYT-PGTINITW
          Q..TC.VAHT..SAD.V...TF.V.SRDFT.PTVKILQSSCDG.GHLPPTIQ.LCL.SGYT.PG.I.ITW
Retrocopy QTLTCSVAHTLWSADQVS--TFSVYSRDFTLPTVKILQSSCDGSGHLPPTIQFLCLISGYT<PGAISITW

Parental  LEDGQVMDVDLSTASTTQEGELASTQSELTLSQKHWLSDRTYTCQVTYQGDTFEDSTKKCADSNPRGVSA
          LEDGQV.DV..S.AS...E.ELASTQS.LTL.QK.WL.D.TY.CQVTYQG.TFEDS.KK.ADSNP.GVS.
Retrocopy LEDGQVVDVNWSIASPMLEDELASTQSKLTLTQKRWLPDHTYICQVTYQGNTFEDSAKKRADSNPQGVST

Parental  YLSRPSPFDLFIRKSPTITCLVVDLAPSKGTVNLTWSRASGKPVNHSTRKQEKQRNGTLTVTSTLPVGTR
          YLSR.SPF.LFIRK.PTITCLVVDLAPS...V.LTWS.ASGK.V......QEKQ.NG..T.TSTL.VGTR
Retrocopy YLSRSSPFYLFIRKLPTITCLVVDLAPSRENVKLTWSQASGKSVAQVILRQEKQCNGMFTITSTLLVGTR

Parental  DWIEGETYQCRVTHPHL
          DWI.GETYQCRVTH.HL
Retrocopy DWIKGETYQCRVTHTHL

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	0.19 RPM	0.00 RPM
SRP007412_cerebellum	0.04 RPM	0.00 RPM
SRP007412_heart	0.16 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.08 RPM	0.08 RPM
SRP007412_testis	0.21 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_2771 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2771 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Macaca mulatta	retro_mmul_1193

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000028496	1 retrocopy	retro_ggor_2771 ,
Macaca mulatta	ENSMMUG00000030305	1 retrocopy	retro_mmul_1193,