RetrogeneDB ID: retro_ggor_1323

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 17:4962586..4963000(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP6V0C
• Ensembl ID: ENSGGOG00000028600
• Aliases: None
• Description: None

Sequence

>retro_ggor_1323
CTCACAGACATGTCCAACAGCCCCGAGTATGCTTTGGTTTTCACCATCTCGGGTGCTATGGCCACCATGGTCTCCAGTGG
CCTGGGTGCTGCCTGTGGCATGGCCAAGAATGGCACCGGCATCGTGGCCATGTCTGTCATGTGGCCAGAGCTGATCCACA
TGAAGTCCATCATCCCAGTGGTCATGGCTGGTATCATCACCATCTATGGCCTAGTGGCGGCTGTCCCCCCTGCCAACTCC
CTGAGTGATGACAACAGTCTCTATAGCAGTTTCCTCCAGCTGGGCGCTGGCCTGAGTGGCCTGGCAGCCGGCTTTGCCAT
CGTCATCGTGGGGGACACTGGCAAGTGTGGCACTGCCCAGCAGCCCTGACTATTTGTAGGCATGATACTGATCCTCATCT
TTGCCAAGGTGCTC

Alignment

ORF - retro_ggor_1323 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.54 %
• Parental protein coverage: 90.97 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSESKSGPEYASFFAVMGASAAMVFSALGAAYGTAKSGTGIAAMSVMRPELI-MKSIIPVVMAGIIAIYG
          .......PEYA..F...GA.A.MV.S.LGAA.G.AK.GTGI.AMSVM.PELI.MKSIIPVVMAGII.IYG
Retrocopy LTDMSNSPEYALVFTISGAMATMVSSGLGAACGMAKNGTGIVAMSVMWPELIHMKSIIPVVMAGIITIYG

Parental  LVVAVLIANSLNDDISLYKSFLQLGAGLSVGLSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAE
          LV.AV..ANSL.DD.SLY.SFLQLGAGLS....GLAAGFAI.IVGD.G..GTAQQP.LFVGMILILIFA.
Retrocopy LVAAVPPANSLSDDNSLYSSFLQLGAGLS----GLAAGFAIVIVGDTGKCGTAQQP*LFVGMILILIFAK

Parental  VL
          VL
Retrocopy VL

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	0.14 RPM	376.44 RPM
SRP007412_cerebellum	0.35 RPM	263.10 RPM
SRP007412_heart	0.09 RPM	56.66 RPM
SRP007412_kidney	0.04 RPM	138.16 RPM
SRP007412_liver	0.11 RPM	45.26 RPM
SRP007412_testis	0.00 RPM	42.99 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_1323 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1323 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1798

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Parental genes homology:

Parental genes homology involve 15 parental genes, and 31 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000026428	1 retrocopy	retro_btau_1638,
Homo sapiens	ENSG00000185883	2 retrocopies	retro_hsap_1798, retro_hsap_3462,
Gorilla gorilla	ENSGGOG00000028600	2 retrocopies	retro_ggor_1323 , retro_ggor_2335,
Macropus eugenii	ENSMEUG00000004597	2 retrocopies	retro_meug_1428, retro_meug_1837,
Myotis lucifugus	ENSMLUG00000026715	2 retrocopies	retro_mluc_2507, retro_mluc_294,
Monodelphis domestica	ENSMODG00000015439	5 retrocopies	retro_mdom_1669, retro_mdom_1739, retro_mdom_507, retro_mdom_84, retro_mdom_982,
Mus musculus	ENSMUSG00000024121	2 retrocopies	retro_mmus_2726, retro_mmus_2888,
Nomascus leucogenys	ENSNLEG00000009416	2 retrocopies	retro_nleu_1692, retro_nleu_2770,
Procavia capensis	ENSPCAG00000015060	1 retrocopy	retro_pcap_148,
Pan troglodytes	ENSPTRG00000007653	2 retrocopies	retro_ptro_1204, retro_ptro_2346,
Rattus norvegicus	ENSRNOG00000006542	1 retrocopy	retro_rnor_118,
Sarcophilus harrisii	ENSSHAG00000014251	1 retrocopy	retro_shar_194,
Ictidomys tridecemlineatus	ENSSTOG00000013420	3 retrocopies	retro_itri_119, retro_itri_387, retro_itri_691,
Drosophila melanogaster	FBgn0262736	3 retrocopies	retro_dmel_3, retro_dmel_38, retro_dmel_65,
Caenorhabditis elegans	R10E11.2	2 retrocopies	retro_cele_1, retro_cele_5,