RetrogeneDB ID: retro_ggor_1910

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:1432905..1433251(-)
• Located in intron of: ENSGGOG00000002403

Retrocopy information

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

Parental gene information

• Parental gene symbol: CRB3
• Ensembl ID: ENSGGOG00000007070
• Aliases: None
• Description: None

Sequence

>retro_ggor_1910
GGCCTGGGGCTGCTCCTGGCGCTGGGCCTGCCGCTGCTGTCGACCCTGGGAAGGACCCTGGGCACAAATATCAACCCCTT
CTGCAAACGAGAGTAGCATTGTTTGGCCTACACCCACCAGCTCCAGCTCCAGTGGAGCCCTGTTTCGGGGGGCCGTCACT
GCTATCATCTTGGTCCTCTGATTCCTGGCCGTCTTGTTCCTGGCGGTGGGGCTGGCACCATTGGTGCGGAAGCTTCGGGA
GATGCGGCAGACGGAGGGCACCTACTGGCCCAGCAGCAAGGAGCAGTTCTCCTATGTAGCTGAGGCCTGGGCCTCTCAGT
ACTCCAATGAGACCGTGTGGGGCTGC

Alignment

ORF - retro_ggor_1910 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.07 %
• Parental protein coverage: 94.4 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GLGLLLALGLPFLLARWGRA-WGQIQTASANEDSTVLPSSTSSSSSSDGNLRPEATTAIIVVFSLLAALL
          GLGLLLALGLP.LL...GR..W.QI.T.SANE.S.V.P..TSSSSS..G.L...A.TAII.V...LA.L.
Retrocopy GLGLLLALGLP-LLSTLGRT>WAQISTPSANESSIVWPTPTSSSSS--GALFRGAVTAIILVL*FLAVLF

Parental  LAVGLALLVRKLREKRQTEGTYRPSSEEQFSHAAEARAPQDSKETVQGC
          LAVGLA.LVRKLRE.RQTEGTY.PSS.EQFS..AEA.A.Q.S.ETV.GC
Retrocopy LAVGLAPLVRKLREMRQTEGTYWPSSKEQFSYVAEAWASQYSNETVWGC

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	0.14 RPM
SRP007412_cerebellum	0.20 RPM	0.35 RPM
SRP007412_heart	0.00 RPM	0.03 RPM
SRP007412_kidney	0.00 RPM	5.15 RPM
SRP007412_liver	0.00 RPM	2.66 RPM
SRP007412_testis	0.00 RPM	0.00 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_1910 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1910 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2747
Pongo abelii	retro_pabe_2222
Macaca mulatta	retro_mmul_1434

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000016567	1 retrocopy	retro_cjac_868,
Homo sapiens	ENSG00000130545	2 retrocopies	retro_hsap_2747, retro_hsap_3478,
Gorilla gorilla	ENSGGOG00000007070	2 retrocopies	retro_ggor_1910 , retro_ggor_2345,
Macaca mulatta	ENSMMUG00000005599	1 retrocopy	retro_mmul_1434,
Nomascus leucogenys	ENSNLEG00000015936	1 retrocopy	retro_nleu_1543,
Pongo abelii	ENSPPYG00000009457	2 retrocopies	retro_pabe_2222, retro_pabe_2873,
Pan troglodytes	ENSPTRG00000010367	1 retrocopy	retro_ptro_2984,
Rattus norvegicus	ENSRNOG00000047322	1 retrocopy	retro_rnor_1506,
Ictidomys tridecemlineatus	ENSSTOG00000002396	1 retrocopy	retro_itri_781,