RetrogeneDB ID: retro_ggor_1162

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:59726535..59727386(+)
• Located in intron of: None

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_1162
CAGCTGGTGGAGACAAGGAAACAGGATGCTGATAGTCTCCAGAGGACCCTGACTGTGGGCTGGTGTATGGAACTGCTGCA
AGCTTTCTTCCTGGTGACAGATGACATCATGGATTCATCCCTCACCTGCTGGGGACAGATCTGCTGTTATCAGAAGATGG
GCATGGGGTAGGATGCCATCAATTATGCTATCCTTCTGGAAGCATGTATCTACTACCTGCTGAAGCTCTATTGCCAAGCG
CAGCCCTATTACCTGAACCTGATCGAGCTCTTCCTGCAGATTTCCTATCAGCCTGAGATTGGGCAGACCCTGGACCTCAT
CACAGCCCCCTAGGACAATGTGGATTTTGGCAGATTCACTGAAAAGAGGTACAAATCTATTGTCAAGTACAAGACAGCTT
TCTACTTTTTCTACCTTCCTGTAGCTGCAGCCATGTACATGGTAGGAATTGATGGTGAGAAGCAGCACGCCAATGCTTAG
AAGATCCTACTGGAGATCGAGAGTTTTTTCAAATTCAAGATGGTTACCTTGACCTCTTTGGGGACCCCATTGTGACCCGC
AAAGTTGGCACTGACATCCAGGACAACAAATGCAGCTGGCTGGTGGTTCAGTGTCTGCAACGATCCACTCTGGAACAGTA
CCAGATCCTGAAGGAAAATTACGGACAGAAGAAGGCCAAGAAGGTAGTCCAGGTGAAGGCACTGTATGAGGAGCTGGATC
TGCCGGCCGTGTTCTTGCAGTATGAGGAAGACGGTTACAGCCACACTATGGGTCTCACTGAACAGTACGCAGCACCCCTG
CTCCCAGCCATCTTTCTGGGGCTTGCGTACAAAATCTACAAGCAGAAAAAG

Alignment

ORF - retro_ggor_1162 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.11 %
• Parental protein coverage: 67.78 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGVGLDAINDANLLEACI
          .LVE.RKQDADSLQR..TVGWC.ELLQAFFLV.DDIMDSSLT..GQIC.YQK.G.G.DAIN.A.LLEACI
Retrocopy QLVETRKQDADSLQRTLTVGWCMELLQAFFLVTDDIMDSSLTCWGQICCYQKMGMG*DAINYAILLEACI

Parental  YRLLKLYCREQPYYLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKTAFYSFYLP
          Y.LLKLYC..QPYYLNLIELFLQ.SYQ.EIGQTLDL.TAP..NVD..RFTEKRYKSIVKYKTAFY.FYLP
Retrocopy YYLLKLYCQAQPYYLNLIELFLQISYQPEIGQTLDLITAP*DNVDFGRFTEKRYKSIVKYKTAFYFFYLP

Parental  IAAAMYMAGIDGEKEHANAKKILLEM-GEFFQIQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRA
          .AAAMYM.GIDGEK.HANA.KILLE...EFFQIQD.YLDLFGDP.VT.K.GTDIQDNKCSWLVVQCLQR.
Retrocopy VAAAMYMVGIDGEKQHANA*KILLEI<REFFQIQDGYLDLFGDPIVTRKVGTDIQDNKCSWLVVQCLQRS

Parental  TPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMALIEQYAAPLPPAVFLGLARKI
          T.EQYQILKENYGQK.A.KV..VKALYEELDLPAVFLQYEED.YSH.M.L.EQYAAPL.PA.FLGLA.KI
Retrocopy TLEQYQILKENYGQKKAKKVVQVKALYEELDLPAVFLQYEEDGYSHTMGLTEQYAAPLLPAIFLGLAYKI

Parental  YKRRK
          YK..K
Retrocopy YKQKK

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	0.00 RPM	128.56 RPM
SRP007412_heart	0.00 RPM	34.43 RPM
SRP007412_kidney	0.00 RPM	103.20 RPM
SRP007412_liver	0.03 RPM	119.84 RPM
SRP007412_testis	0.00 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_1162 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1162 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1519
Pan troglodytes	retro_ptro_1028
Macaca mulatta	retro_mmul_2152

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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,