RetrogeneDB ID: retro_ggor_2364

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:89392722..89393534(+)
• Located in intron of: ENSGGOG00000013368

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000198211
• Ensembl ID: ENSGGOG00000002192
• Aliases: None
• Description: None

Sequence

>retro_ggor_2364
ATGAGGGAGATCGTGCACATTCAGGCTGGCCAGTGCGTCAACTAGATCGGGGCCAAGTTCTGGGAAGTCATCAGTGATGA
GCATGGCATAGACCCCAGCGGCAACTACGTGGGGAACTCGGACTTGGAGCTGGAGCAGATCAGCATCTACTACAACGAGG
CCTCTTCTCACAAGTATGTGCCTCGGGCCATTCGTCGACCTGGAGCCCGGGACCATGGACAGTGTCCGCTCGGGGCCTTT
TGGACATTTTTTCAGGCCTGACAATTTAATCTTTGGTCAGAGTGGGGCCGGCAATAACTGGGCCAGGGGTCACTACACGG
AGGGTGCGGAGCTGGTGGATTCCATCCTGGATGTGCGGAAGAAGTGTGAGAACTGCGACGGTCTGTAGGGTTTCCAGTTG
ACCCTCTCGCTGGGCGGGAGCACAAGCTCGGGTATGGGCACGCTGCTCATCAGCAAGATGCATGAGGAGTATCCAAACTG
CATCATGAACACCTTCAGCGTAGTGCCCTCGCCCAAGATGTCAGATACTGTGGTGGAGCCCTACAACCCCACGCTGTCCA
TCCACCAGCTGGTGGAGAATACAGATGAGACCTACTGCATCAACAAGGAGGCGCTCTAAGACATCTGCGTCAGCACCCTC
AGGCTGGCCACGCCCACCTACGGGGACCTCAGCCACCTGATGTTGGCCACCATGAGCAGGATCACTACCTCCTTGTGCTT
CCCGGGCCAGCTCAATGCGGACCTGCACAAGCTGGTGGTGAACATGGGTGCCCTTCCCCCGCCTGCACTTCTTCATGCCA
GGCATGAAGCCC

Alignment

ORF - retro_ggor_2364 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.43 %
• Parental protein coverage: 60.44 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPSGNYVGDSDLQLERISVYYNEASSHKYVPRAILVDLEP
          MREIVHIQAGQC.N.IGAKFWEVISDEHGIDPSGNYVG.SDL.LE.IS.YYNEASSHKYVPRAI.....P
Retrocopy MREIVHIQAGQCVN*IGAKFWEVISDEHGIDPSGNYVGNSDLELEQISIYYNEASSHKYVPRAI---RRP

Parental  GTMDSVRS--GAF-GHLFRPDNFIFGQSGAGNNWAKGHYTEGAELVDSVLDVVRKECENCDCLQGFQLTH
          G..D......GAF.GH.FRPDN.IFGQSGAGNNWA.GHYTEGAELVDS.LD.VRK.CENCD.L.GFQLT.
Retrocopy GARDHGQCPLGAF>GHFFRPDNLIFGQSGAGNNWARGHYTEGAELVDSILD-VRKKCENCDGL*GFQLTL

Parental  SLGGGTGSGMGTLLISKVREEYPDRIMNTFSVVPSPKVSDTVVEPYNATLSIHQLVENTDETYCIDNEAL
          SLGG.T.SGMGTLLISK..EEYP..IMNTFSVVPSPK.SDTVVEPYN.TLSIHQLVENTDETYCI..EAL
Retrocopy SLGGSTSSGMGTLLISKMHEEYPNCIMNTFSVVPSPKMSDTVVEPYNPTLSIHQLVENTDETYCINKEAL

Parental  YDICFRTLKLATPTYGDLNHLVSATMSGVTTSLRFPGQLNADLRKLAVNM-VPFPRLHFFMPGFAP
          .DIC..TL.LATPTYGDL.HL..ATMS..TTSL.FPGQLNADL.KL.VNM.VPFPRLHFFMPG..P
Retrocopy *DICVSTLRLATPTYGDLSHLMLATMSRITTSLCFPGQLNADLHKLVVNM>VPFPRLHFFMPGMKP

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	210.23 RPM
SRP007412_cerebellum	0.00 RPM	149.36 RPM
SRP007412_heart	0.00 RPM	1.88 RPM
SRP007412_kidney	0.00 RPM	5.07 RPM
SRP007412_liver	0.00 RPM	2.56 RPM
SRP007412_testis	0.00 RPM	29.63 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_2364 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2364 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pan troglodytes	retro_ptro_2369
Macaca mulatta	retro_mmul_1777

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010530	1 retrocopy	retro_cjac_1144,
Homo sapiens	ENSG00000258947	1 retrocopy	retro_hsap_155,
Gorilla gorilla	ENSGGOG00000002192	1 retrocopy	retro_ggor_2364 ,
Gorilla gorilla	ENSGGOG00000022655	4 retrocopies	retro_ggor_2388, retro_ggor_244, retro_ggor_2519, retro_ggor_2651,
Nomascus leucogenys	ENSNLEG00000015940	1 retrocopy	retro_nleu_3106,