RetrogeneDB ID: retro_ggor_593

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:88062642..88063094(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SPA17
• Ensembl ID: ENSGGOG00000003757
• Aliases: None
• Description: Sperm surface protein Sp17 [Source:UniProtKB/TrEMBL;Acc:G3QMF2]

Sequence

>retro_ggor_593
ATGTCGATTCCATTCTCCAATACCCACTACTGAATTCTGCAAGGATTTGGGAGTCTTCTTAAAGAGCTGACCCACGAGAT
TCTGAGAGAGCAACCAGATAATATACAGCTTTTTCAGCAGCATATTTTGACAGCTTTCCAGAGAAAAGAGAGAAAACCAC
TTTTGATCCAGCAGAATGGGGGACTCAGGTAGAAGACTGCTTCTAGAACAGTCATGCATTCGAGGAGCAAGAACCACCTG
AGAAATGTGATCCTAAACAAGAAAACTCTCCAATATCTGGGAAGGAGGAAGAGACACCAGTCACCATCTTAGACTCTTCT
GAGGAAGATAAGGAAAAAGAAGAGGTTGCTGCTGTCAAAATCCAGGCTGCCTTCTGGGGACACACAGCCAGACAGGAGGT
AAAGAGAATGGAAACAGATAGTCTCCGACATGAGGAAACAGAGGAATACAAG

Alignment

ORF - retro_ggor_593 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.29 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSIPFSNTHYRIPQGFGNLLEGLTREILREQPDNIP-AFAAAYFESLLEKREKTNFDPAEWGSKVEDRFY
          MSIPFSNTHY.I.QGFG.LL..LT.EILREQPDNI..AF.AAYF.S..EKREKT.FDPAEWG..VED.F.
Retrocopy MSIPFSNTHY*ILQGFGSLLKELTHEILREQPDNIQ<AFSAAYFDSFPEKREKTTFDPAEWGTQVEDCF*

Parental  NSHAFEEQEPPEKSDPKQEESQISGKEEETSVTILDSSEEDKEKEEVAAVKIQAAFRGHIAREEAKKMKT
          NSHAFEEQEPPEK.DPKQE.S.ISGKEEET.VTILDSSEEDKEKEEVAAVKIQAAF.GH.AR.E.K.M.T
Retrocopy NSHAFEEQEPPEKCDPKQENSPISGKEEETPVTILDSSEEDKEKEEVAAVKIQAAFWGHTARQEVKRMET

Parental  NSFQNEEREENK
          .S...EE.EE.K
Retrocopy DSLRHEETEEYK

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	0.67 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.22 RPM
SRP007412_kidney	0.08 RPM	1.51 RPM
SRP007412_liver	0.00 RPM	0.13 RPM
SRP007412_testis	0.00 RPM	144.63 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_593 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_593 has 5 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_696
Pan troglodytes	retro_ptro_500
Pongo abelii	retro_pabe_529
Macaca mulatta	retro_mmul_2405
Callithrix jacchus	retro_cjac_978

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007961	1 retrocopy	retro_cjac_978,
Echinops telfairi	ENSETEG00000007789	1 retrocopy	retro_etel_911,
Homo sapiens	ENSG00000064199	1 retrocopy	retro_hsap_696,
Gorilla gorilla	ENSGGOG00000003757	1 retrocopy	retro_ggor_593 ,
Macaca mulatta	ENSMMUG00000008480	1 retrocopy	retro_mmul_2405,
Nomascus leucogenys	ENSNLEG00000007436	1 retrocopy	retro_nleu_2229,
Pongo abelii	ENSPPYG00000004017	1 retrocopy	retro_pabe_529,
Pan troglodytes	ENSPTRG00000004426	1 retrocopy	retro_ptro_500,
Tarsius syrichta	ENSTSYG00000008379	1 retrocopy	retro_tsyr_2091,