RetrogeneDB ID: retro_ggor_2374

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:118966403..118966970(+)
• Located in intron of: ENSGGOG00000003828

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000204645
• Ensembl ID: ENSGGOG00000026107
• Aliases: None
• Description: None

Sequence

>retro_ggor_2374
ATGAACAGAGACAGCACCTTTGCAAAGAGACCCAGGGATGATGCTCAGATATCAGAGAAGAGACACAAGGCCTTCAATGA
TATTGCCAGATACTTATCTAATAAAGAGTGGGGAAAGCTGAAAAACTCAGAGAAAATCACCTATGTGTATATGAAGAGAA
ACTATGAGACCATGACTAAACTAGGTCTCTAGGCCACCCTCCCAACTTTAATGTACAATAAATGGGCTGCAGAATTCCAG
GGGAACGATTCTGATATAGACTAAAACTGCAGGAATCAGGATGAATATCCTCAGATGGCTTTCGGCATGCTACAAGGGAA
CTTTCCAAAGATGATGCCCAAGAAGCCAGCAGAGGAAGGAAATGATTTGAAGGGAGTGCCAGAAGCATCTGGCTCACAAA
ACAATGGGAAACAGCTGTGTCCCCTGGGAAAAGAAAGTACCTCTGAGAAGACTAACAAGACATCTAGACCCAAGAAAAGG
GTGGAACATGTCTGGACCCACGGACTGCGAGAGAGAAAGTATCTAGTGATTTATGAAGAGATCAGAGACCCTGAGGAAGA
TGACAAA

Alignment

ORF - retro_ggor_2374 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.84 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNGDDAFARRPRDDAQISEKLRKAFDDIAKYFSKKEWEKMKSSEKIIYVYMKLNYEVMTKLGFKVTLPPF
          MN.D..FA.RPRDDAQISEK..KAF.DIA.Y.S.KEW.K.K.SEKI.YVYMK.NYE.MTKLG...TLP..
Retrocopy MNRDSTFAKRPRDDAQISEKRHKAFNDIARYLSNKEWGKLKNSEKITYVYMKRNYETMTKLGL*ATLPTL

Parental  MCSKRAADFHGNDFGNDRNHRNQVECPQMTFGRLQRIFPKIMPKKPAEEENDLKEVPEASGPQNDGKQLC
          M..K.AA.F.GND...D.N.RNQ.E.PQM.FG.LQ..FPK.MPKKPAEE.NDLK.VPEASG.QN.GKQLC
Retrocopy MYNKWAAEFQGNDSDID*NCRNQDEYPQMAFGMLQGNFPKMMPKKPAEEGNDLKGVPEASGSQNNGKQLC

Parental  PPGNPSTLEKINKTSGP-KRGKHAWTHRLRERKQLVVYEEISDPEEDDE
          P.G..ST.EK.NKTS.P.KR..H.WTH.LRERK.LV.YEEI.DPEEDD.
Retrocopy PLGKESTSEKTNKTSRPKKRVEHVWTHGLRERKYLVIYEEIRDPEEDDK

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	0.10 RPM	0.00 RPM
SRP007412_cerebellum	0.04 RPM	0.00 RPM
SRP007412_heart	0.16 RPM	0.00 RPM
SRP007412_kidney	15.54 RPM	0.00 RPM
SRP007412_liver	0.26 RPM	0.00 RPM
SRP007412_testis	0.62 RPM	0.31 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_2374 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2374 has 5 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3512
Pan troglodytes	retro_ptro_2385
Pongo abelii	retro_pabe_2903
Macaca mulatta	retro_mmul_1862
Callithrix jacchus	retro_cjac_2373

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000014776	1 retrocopy	retro_cjac_2373,
Homo sapiens	ENSG00000204645	1 retrocopy	retro_hsap_3512,
Gorilla gorilla	ENSGGOG00000026107	1 retrocopy	retro_ggor_2374 ,
Nomascus leucogenys	ENSNLEG00000003504	1 retrocopy	retro_nleu_482,
Ictidomys tridecemlineatus	ENSSTOG00000015375	3 retrocopies	retro_itri_1394, retro_itri_1855, retro_itri_746,