RetrogeneDB ID: retro_ggor_3063

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:133078734..133079494(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WDR4
• Ensembl ID: ENSGGOG00000016652
• Aliases: None
• Description: None

Sequence

>retro_ggor_3063
CTGGCCACCTCTGCTGCAAACAATGATGACAACAACCTCTTCATCTATGACTGCAGTGCTGCAGACTAGTCACAAGAAAA
TAAAGGGGAGGATGGGCTGCCCTTGGTCTGGGGGAGTGGCATGATTCTGGCATCCACCTCCAAGTCTGGCGCTATTTTGC
TTTAACAGATGACCACGAGTGTCTGATTCTTTTCCATACAAAACCATGGCAATGTCTGAGTGTCAGGACCATGGCAAGGA
GGTGTATGGCCCTGACCTTACAGCCTCTGAGGAGAAGGTCTTGGTGGCCGACAAATCTGGAGATATGTACTCCTTTTTGG
TTTCAGAGCCACACAGACGCGGCAGACTTGACCTGGCACAATTGTCAATGTTGTTAGAGGTGACTGTGAGTCCTGATAAC
TGCTTCATCCTCACTGCCAACCAGGATGAGAAGATCCAGGTCAGCTAGGCCACAGCGCCTCACAGTATCGAGTCCTTCTG
CCTCGGGCACACGGAGTTTGTGAGCCGCATCTCTGTGGTGCCCACTCAGCCCGAACTGTTTCTTATCCTCCTCCAGGGAC
TGCACTCTTAGGCTCTGGGAGTACAGAAGTGGTCATCAACTGCACTGCTGTCACCTGGCCAGTCTGCAAGGGCTGATGGG
CCCCTGGGACACCAGAGGTTTGTCACATCCGGGATCACGTTCTGGTGCTAGGAGAACTGCATGATGCTTCTGTGCAACTA
TATTCCTGTAATCTACATCTTCCAGCTTGATGCTCTCAGA

Alignment

ORF - retro_ggor_3063 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.46 %
• Parental protein coverage: 61.89 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  LATSIASSDDDSLFIYDCSAAEKKSQENKGEDA-PLDQGSGVILASTFSKSGS-YFALTDDSKRLILFRT
          LATS.A..DD..LFIYDCSAA...SQENKGED..PL..GSG.ILAST.SKSG..YFALTDD...LILF.T
Retrocopy LATSAANNDDNNLFIYDCSAAD*-SQENKGEDGLPLVWGSGMILAST-SKSGA<YFALTDDHECLILFHT

Parental  KPWQCLSVRTVARRCTALTF-IASEEKVLVADKSGDVYSFSVLEPHGCGRLELGHLSMLLDVAVSADDRF
          KPWQCLSVRT.ARRC.ALT...ASEEKVLVADKSGD.YSF.V.EPH..GRL.L..LSMLL.V.VS.D..F
Retrocopy KPWQCLSVRTMARRCMALTL<TASEEKVLVADKSGDMYSFLVSEPHRRGRLDLAQLSMLLEVTVSPDNCF

Parental  ILTADRDEKIRVSWAAAPHSIESFCLGHTEFVSRIFVVPTQPGL-LLSSSGDGTLRLWEYRSGRQLHCCH
          ILTA..DEKI.VS.A.APHSIESFCLGHTEFVSRI.VVPTQP.L..LSSS.D.TLRLWEYRSG.QLHCCH
Retrocopy ILTANQDEKIQVS*ATAPHSIESFCLGHTEFVSRISVVPTQPEL>FLSSSRDCTLRLWEYRSGHQLHCCH

Parental  LASLQELV-DPQAPQRFAASRIAFWCQENCVALLCDGTPVVYIFQLDARR
          LASLQ.L...P...QRF..S.I.FWC.ENC..LLC...PV.YIFQLDA.R
Retrocopy LASLQGLM<GPLGHQRFVTSGITFWC*ENCMMLLCNYIPVIYIFQLDALR

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	5.99 RPM
SRP007412_cerebellum	0.00 RPM	7.17 RPM
SRP007412_heart	0.00 RPM	1.44 RPM
SRP007412_kidney	0.00 RPM	2.98 RPM
SRP007412_liver	0.00 RPM	2.08 RPM
SRP007412_testis	0.00 RPM	5.18 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_3063 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3063 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4905
Pongo abelii	retro_pabe_3814

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000160193	1 retrocopy	retro_hsap_4905,
Gorilla gorilla	ENSGGOG00000016652	1 retrocopy	retro_ggor_3063 ,
Nomascus leucogenys	ENSNLEG00000014641	1 retrocopy	retro_nleu_2350,
Pongo abelii	ENSPPYG00000011458	1 retrocopy	retro_pabe_3814,