RetrogeneDB ID: retro_ggor_1185

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:21840669..21841327(-)
• Located in intron of: ENSGGOG00000006542

Retrocopy information

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

Parental gene information

• Parental gene symbol: RUSC1
• Ensembl ID: ENSGGOG00000000408
• Aliases: None
• Description: None

Sequence

>retro_ggor_1185
GAAGCATGTATGTACCGCCTGCTGAAGCTCTATTGCCAGGAGCAGCCCTATTACCTGAACCTGATCCAGCTCTTCCGGCA
GAGTTTCTATCAGACTGAGATTGGGCAGACCCTGGACCTTATCATAGCCCCCCAGGGCAATGTGGATCTTGGCAGATTCA
CTGAAAAGAGGTACAAATCTAGTGTCAAGTACAAGGCAGTTTCTACTCCTTCTACCTTCCTGTAGCTGCAGCCATGTATA
TGGCAGGTATTGATAGAGAGAAGGAGCATACCAATGCCAAGAAGATCCTGCTGGAGATGGGAGAGGGAGAGTTCTTTCAG
ATCAGGATGATTACCCTCACCTCTTTGGGGACCCCAATGTGACGGGCAAAGTTGGCACTGACATCCAGGACAACAAATGC
AGCTGGCTGGTGGTTCAGTGTCTGCAACGGGCCACTCCAGAACAGTACCAGATTCTGAAGGAGAATTTTGGGCAGAAGGA
GGCCGAGAAGGTGGCCCCGGTGAAGGCAGTATTTGAGGAGCTGGATCTGCCGGCCATGTTCTTGCAATAATAGGAAGACA
GTTACAGCCACGTTATGGGTCTCATTGAACAGTACGCAGCTCCCCTGCCCCCAGTCATCTTTCTGGGGCTGGCGCGCAAA
ATCTACAAGCGGAAAAAG

Alignment

ORF - retro_ggor_1185 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.68 %
• Parental protein coverage: 52.03 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EACIYRLLKLYCREQPYYLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKT-AFY
          EAC.YRLLKLYC.EQPYYLNLI.LF.QS.YQTEIGQTLDL..APQGNVDL.RFTEKRYKS.VKYK...FY
Retrocopy EACMYRLLKLYCQEQPYYLNLIQLFRQSFYQTEIGQTLDLIIAPQGNVDLGRFTEKRYKSSVKYKA<SFY

Parental  SFYLPIAAAMYMAGIDGEKEHANAKKILLEMGE--FFQI-QDDYLDLFGDPSVTGKIGTDIQDNKCSWLV
          SFYLP.AAAMYMAGID.EKEH.NAKKILLEMGE..FFQI.QDDY..LFGDP.VTGK.GTDIQDNKCSWLV
Retrocopy SFYLPVAAAMYMAGIDREKEHTNAKKILLEMGEGEFFQI<QDDYPHLFGDPNVTGKVGTDIQDNKCSWLV

Parental  VQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMALIEQYAAPLPPAVF
          VQCLQRATPEQYQILKEN.GQKEAEKVA.VKA..EELDLPA.FLQ..EDSYSH.M.LIEQYAAPLPP..F
Retrocopy VQCLQRATPEQYQILKENFGQKEAEKVAPVKAVFEELDLPAMFLQ**EDSYSHVMGLIEQYAAPLPPVIF

Parental  LGLARKIYKRRK
          LGLARKIYKR.K
Retrocopy LGLARKIYKRKK

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	147.46 RPM
SRP007412_cerebellum	0.24 RPM	128.56 RPM
SRP007412_heart	0.00 RPM	34.43 RPM
SRP007412_kidney	0.04 RPM	103.20 RPM
SRP007412_liver	0.16 RPM	119.84 RPM
SRP007412_testis	0.10 RPM	91.48 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_1185 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1185 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1560
Pan troglodytes	retro_ptro_1049

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000000408	4 retrocopies	retro_ggor_1162, retro_ggor_1184, retro_ggor_1185 , retro_ggor_2608,