RetrogeneDB ID: retro_ggor_2411

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:32248384..32249150(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WASF3
• Ensembl ID: ENSGGOG00000012518
• Aliases: None
• Description: None

Sequence

>retro_ggor_2411
ATGCCTCCCATGAAGAGGAGCATCTAATCCCAGCATTTGCACCAGGGAGCTCTGCCTGAAGGGATTACCAGTGACTTGAA
AGTGTAACCAACAACAATCTTGTCACTATTACGCACCAGCTAAGCAATCTGAACATACATGCTGAAGACATATTTGGTGA
GCTATTTAAGGAGGCTAACTACTTCCACATTAGATCAAATTCTCTTAGAATTTGTTGCCTCACGGTCAAAGTCACTCAGC
TGGATTCAGCAGTGGAAGAGGTGTCACCATAGGACATCAACATGGAAAAAGCCCTCAAAAGTTCCCCAGCCCAAGACCAG
CAAGCAGTTTCAAAGAGCAGCATTCCTACTCCTGCTGCTGACATTTACAATCAGAGTGATTGACCACCTCCCCTGAATAG
CATGAGAGCACACGGAGATGATAAAGACAGGCTGAAGTTCTATACTGATCCTTCCCATTTATTTGACCTCTGGAAAGAAG
AAGTGCTGCAGGACACAGAAGACAAAAGGAAAGACAGAAGGCATCAAAAGTAGCCAAACCACATAGGTGGCACCACTTAT
GATGTGAAAAGGATTACAAAAGCCAGAAACAAGCACCATGAGTGGAATATGATGGCATATGACAAAGAGCTTAGACCCAG
CAACAGGTTGTCTCAGTGTGTACCATGGAGCATCCTCCAAGGACCCCTGTCCCTAGACAGCAGGTCCCATGCGACGGATG
TTAGGGATGCTCTTATCGAGCTACTCCAAACCATTCTCACGACCCT

Alignment

ORF - retro_ggor_2411 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.41 %
• Parental protein coverage: 51.79 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MPLVKRNIEPRHLCRGALPEGITSEL-ECVTNSTLAAIIRQLSSLSKHAEDIFGELFNEANNFYIRANSL
          MP..KR.I...HL..GALPEGITS.L.E.VTN..L..I..QLS.L..HAEDIFGELF.EAN.F.IR.NSL
Retrocopy MPPMKRSI*SQHLHQGALPEGITSDL<ESVTNNNLVTITHQLSNLNIHAEDIFGELFKEANYFHIRSNSL

Parental  QDRIDRLAVKVTQLDSTVEEVSLQDINMKKAFKSSTVQDQQVVSKNSIPNPVADIYNQSDKPPPLNILTP
          ..RI..L.VKVTQLDS.VEEVS..DINM.KA.KSS..QDQQ.VSK.SIP.P.ADIYNQSD.PPPLN....
Retrocopy --RICCLTVKVTQLDSAVEEVSP*DINMEKALKSSPAQDQQAVSKSSIPTPAADIYNQSD*PPPLNSMRA

Parental  YRDDKKDGLKFYTDPSYFFDLWKEKMLQDTEDKRKEKRRQKEQKRIDGTTREVKKVRKARNRRQEWNMMA
          ..DDK.D.LKFYTDPS..FDLWKE..LQDTEDKRK..R.QK....I.GTT..VK...KARN...EWNMMA
Retrocopy HGDDK-DRLKFYTDPSHLFDLWKEEVLQDTEDKRKDRRHQK*PNHIGGTTYDVKRITKARNKHHEWNMMA

Parental  YDKELRPDNRLSQSVYHGASSEGSLSPDTRSHASDVTD-YSYPATPNHSLHP
          YDKELRP.NRLSQ.V.......G.LS.D.RSHA.DV.D..SY.ATPNHS..P
Retrocopy YDKELRPSNRLSQCV-PWSILQGPLSLDSRSHATDVRD<CSYRATPNHSHDP

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	184.00 RPM
SRP007412_cerebellum	0.00 RPM	203.89 RPM
SRP007412_heart	0.00 RPM	8.07 RPM
SRP007412_kidney	0.00 RPM	18.81 RPM
SRP007412_liver	0.00 RPM	14.38 RPM
SRP007412_testis	0.00 RPM	48.80 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_2411 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2411 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000132970	1 retrocopy	retro_hsap_3574,
Gorilla gorilla	ENSGGOG00000004436	1 retrocopy	retro_ggor_2904,
Gorilla gorilla	ENSGGOG00000012518	1 retrocopy	retro_ggor_2411 ,
Tarsius syrichta	ENSTSYG00000005184	3 retrocopies	retro_tsyr_1561, retro_tsyr_366, retro_tsyr_407,