RetrogeneDB ID: retro_ggor_2961

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:125848736..125849593(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RUVBL2
• Ensembl ID: ENSGGOG00000009245
• Aliases: None
• Description: None

Sequence

>retro_ggor_2961
ATGGCAACTGTGATGACCGTGACCAATGTCCCAGAGATCTATGATGTGAGGAGAACTGAGCATAGAGGTGTTCACTCCCA
CATCTGAGGACTGGGGCTGGATGATGCTTTGGAGGCTCAACAGGCTTCCCAGGGCATGGTGGGTCAGCTTTGCTGCACAG
CAGGCAGCTGGTGTGGGGCTGGAGATGATCCATAAAGGGAAGATTGTCAAGTGGGCAGTCCTCATTGCTGGTCTGCTGGG
CAGAGGGAAGACAGCCATCGCCCTAGGCATGGCATAGGCCCTGGGACCTGACACCTTGTTCATAGCCATCACCGGCAGTG
AGATCTCCCTGGAGATGAGCAAGACCCAGGCACTGACACAGGCTTTCTGGCCATCTTTTGGCATTCGCTTCAAGGAGGAG
ATGGAGATCATCGAAGGGGAAGTGGTTGAGACCCAGATTTATAGACCAGTGACAGGAATGGGCTCCAAGGTGGGCAAACT
GACCAAAAAAACCAAGAAGATGGAGACCATCTATGACCTGGGCATGAAGATGATTGAGTCCCTGACCAAAGACAAGATCC
ACACTGGTGACATGATCACTATTGACAAAGCAATGGGAAAGATCTCCAAGTTGGGCCACTCCTTTACATGGTCTGGTGAC
TACAACCCCATGGACTCCCAGACCACATTCAGGCAGCCCCCATATGGGAAGCTCCAGAAATGCAAGGTGCATACTGTGTC
CCTTGCACAAGATCGACATCATCAACTCCCACACGCATGGCTTCCTGGCTCTCTTCTCATGTGACACAAGAGAGATCAAG
TCAGAAGTTGCCAAGCAGATCAATGTCAAAGTGGCCGAGTGGATGGAACAAAATAGA

Alignment

ORF - retro_ggor_2961 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.41 %
• Parental protein coverage: 62.2 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MATVTATTKVPEIRDVTRIERIGAHSHIRGLGLDDALEPRQASQGMVGQL-AARRAAGVVLEMIREGKIA
          MATV...T.VPEI.DV.R.E..G.HSHI.GLGLDDALE..QASQGMVGQL.AA..AAGV.LEMI..GKI.
Retrocopy MATVMTVTNVPEIYDVRRTEHRGVHSHI*GLGLDDALEAQQASQGMVGQL>AAQQAAGVGLEMIHKGKIV

Parental  GRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEALTQAFRRSIGVRIKEETEIIE
          ..AVLIAG..G.GKTAIA.GMA.ALGPDT.F.AI.GSEI.SLEMSKT.ALTQAF..S.G.R.KEE.EIIE
Retrocopy KWAVLIAGLLGRGKTAIALGMA*ALGPDTLFIAITGSEI-SLEMSKTQALTQAFWPSFGIRFKEEMEIIE

Parental  GEVVEIQIDRPATGTGSKVGKLTLKTTEMETIYDLGTKMIESLTKDKVQAGDVITIDKATGKISKLGRSF
          GEVVE.QI.RP.TG.GSKVGKLT.KT..METIYDLG.KMIESLTKDK...GD.ITIDKA.GKISKLG.SF
Retrocopy GEVVETQIYRPVTGMGSKVGKLTKKTKKMETIYDLGMKMIESLTKDKIHTGDMITIDKAMGKISKLGHSF

Parental  TRARDYDAMGSQTKFVQCPDGELQKRKEVVHTVS-LHEIDVINSRTQGFLALFSGDTGEIKSEVREQINA
          T...DY..M.SQT.F.Q.P.G.LQK.K..VHTVS.LH.ID.INS.T.GFLALFS.DT.EIKSEV..QIN.
Retrocopy TWSGDYNPMDSQTTFRQPPYGKLQKCK--VHTVS>LHKIDIINSHTHGFLALFSCDTREIKSEVAKQINV

Parental  KVAEWREEGK
          KVAEW.E...
Retrocopy KVAEWMEQNR

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	0.05 RPM	43.64 RPM
SRP007412_cerebellum	0.00 RPM	45.07 RPM
SRP007412_heart	0.00 RPM	21.95 RPM
SRP007412_kidney	0.00 RPM	36.76 RPM
SRP007412_liver	0.00 RPM	30.33 RPM
SRP007412_testis	0.00 RPM	355.04 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_2961 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2961 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4755
Pan troglodytes	retro_ptro_3168
Pongo abelii	retro_pabe_3701
Macaca mulatta	retro_mmul_2536

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000000222	2 retrocopies	retro_cjac_329, retro_cjac_4119,
Homo sapiens	ENSG00000183207	1 retrocopy	retro_hsap_4755,
Gorilla gorilla	ENSGGOG00000009245	1 retrocopy	retro_ggor_2961 ,
Macropus eugenii	ENSMEUG00000000069	1 retrocopy	retro_meug_2099,
Macaca mulatta	ENSMMUG00000003915	1 retrocopy	retro_mmul_2536,
Nomascus leucogenys	ENSNLEG00000004769	1 retrocopy	retro_nleu_1251,
Otolemur garnettii	ENSOGAG00000007519	2 retrocopies	retro_ogar_2473, retro_ogar_3246,
Pongo abelii	ENSPPYG00000010225	1 retrocopy	retro_pabe_3701,
Pan troglodytes	ENSPTRG00000011270	1 retrocopy	retro_ptro_3168,