RetrogeneDB ID: retro_ggor_1585

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 21:33760593..33761008(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SSR4
• Ensembl ID: ENSGGOG00000024329
• Aliases: None
• Description: None

Sequence

>retro_ggor_1585
CAGCCTCTGATGCTCCCTTCCTATTCCATGGCTTCAGGTGCCATCCTCTCCACAGAGACGGTTTCTATTGTGACGCTCTC
CCTGACTTGGAAGAATGGCACTGGGAACATTCCCCTTGGTGCTGATGTCGGGGAGGAAAGCAGTTTCCAGTCGCCTGGGG
CCAGGACATGGCGTTCCCAGCTGTTGTGGAGCATGAAGCACCAGGATGCCCATTCGGGTGCCTGCTGAGATCAGGCTCTT
CGAGAAGGAATCCTGTGGTCGCCTGAGGAAGTCCAAAAAAATTTCGAGGACATCTCAGCCATCCATCCCCTGTTCACTGT
GGAGGTTGAACACCGGGGCTCCTGGAGGGGGGCCCTGGGTCTCCACAGAAGTGCTGGCAGCCACCATCCACTTCCTGGCC
TTCCGTGCCCGCTCC

Alignment

ORF - retro_ggor_1585 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.03 %
• Parental protein coverage: 82.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EPQITPSYYTTSDAVISTETVFIVEISLTCKNRVQNMALYADVGGKQFPVTRGQDVGRYQVSWSLDHKSA
          .P...PSY...S.A..STETV.IV..SLT.KN...N..L.ADVG........G....R.Q..WS..H..A
Retrocopy QPLMLPSYSMASGAILSTETVSIVTLSLTWKNGTGNIPLGADVGEESSFQSPGARTWRSQLLWSMKHQDA

Parental  HAGT-YEVRFFDEESYSLLRKA-QRNNEDISIIPPLFTVSVDHRGTW-NGPWVSTEVLAVAIGLVIYYLA
          H.G...E.R.F..ES...LRK..Q.N.EDIS.I.PLFTV.V.HRG.W..GPWVSTEVLA..I......LA
Retrocopy HSGA>AEIRLFEKESCGRLRKS<QKNFEDISAIHPLFTVEVEHRGSW>GGPWVSTEVLAATI----HFLA

Parental  FSAKS
          F.A.S
Retrocopy FRARS

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	21.87 RPM
SRP007412_cerebellum	0.08 RPM	22.69 RPM
SRP007412_heart	0.03 RPM	11.82 RPM
SRP007412_kidney	0.04 RPM	39.91 RPM
SRP007412_liver	0.11 RPM	59.48 RPM
SRP007412_testis	0.10 RPM	21.96 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_1585 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1585 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2536
Callithrix jacchus	retro_cjac_2056

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000011328	1 retrocopy	retro_acar_97,
Callithrix jacchus	ENSCJAG00000011167	1 retrocopy	retro_cjac_2056,
Dasypus novemcinctus	ENSDNOG00000025714	2 retrocopies	retro_dnov_1204, retro_dnov_922,
Homo sapiens	ENSG00000180879	1 retrocopy	retro_hsap_2536,
Gorilla gorilla	ENSGGOG00000024329	1 retrocopy	retro_ggor_1585 ,
Loxodonta africana	ENSLAFG00000006908	1 retrocopy	retro_lafr_337,
Mustela putorius furo	ENSMPUG00000008803	1 retrocopy	retro_mputfur_148,
Nomascus leucogenys	ENSNLEG00000013602	1 retrocopy	retro_nleu_2738,
Otolemur garnettii	ENSOGAG00000006738	1 retrocopy	retro_ogar_691,
Procavia capensis	ENSPCAG00000009037	1 retrocopy	retro_pcap_139,
Sus scrofa	ENSSSCG00000012784	1 retrocopy	retro_sscr_866,