RetrogeneDB ID: retro_ggor_331

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:184198851..184199260(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C12ORF45
• Ensembl ID: ENSGGOG00000027272
• Aliases: None
• Description: None

Sequence

>retro_ggor_331
CACCGCAAGCCCCAGGCCAGCTCAAGCTCTGTGTTGTCCACTCAGGACTGCTACAGAGGGAGCCTTGGTGCCTAAGGAGT
GGCTGACGGTAGGGAACAACAGCCAAGGAGGTATATCAGACAGGTTGCTCATCAACTCCCAGTTTGATTCTAGAAAGAAC
TCCACTATCCAACCAGTCCAGATACAGAGGAGTCCCTTAGTGGACCAAGGACAGACCTTTCTCCCACAGATGGCCCAGGC
ACATGAAAAGCTAAGAAAATAAATGGCGGGTTCACCATCTGGTTGTTTCAATATTGAAAATATTGATGGTTCTCTTAGAA
AAGTTATACAAATGGATGTGGTCTTGTTTGAGATGAACCAGTCAAATTCAAAAGTGAACAGTTCAGAATCTGAGGATGAA
GATGACAGC

Alignment

ORF - retro_ggor_331 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.5 %
• Parental protein coverage: 72.97 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HGKPQASPSC-SSPTRDSS-GVPVSKELLTAGSDGRGGIWDRLLINSQPKSRKTSTLQTVRIERSPLLDQ
          H.KPQAS.S....P.R....G..V.KE.LT.G....GGI.DRLLINSQ..SRK.ST.Q.V.I.RSPL.DQ
Retrocopy HRKPQASSSS>CCPLRTATEGALVPKEWLTVGNNSQGGISDRLLINSQFDSRKNSTIQPVQIQRSPLVDQ

Parental  VQTFLPQMARANEKLRKEMAAAPPGRFNIENIDGPHSKVIQMDVALFEMNQSDSKEADSSEESSQDS
          .QTFLPQMA.A.EKLRK.MA..P.G.FNIENIDG...KVIQMDV.LFEMNQS.SK...S..E...DS
Retrocopy GQTFLPQMAQAHEKLRK*MAGSPSGCFNIENIDGSLRKVIQMDVVLFEMNQSNSKVNSSESEDEDDS

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	2.35 RPM
SRP007412_cerebellum	0.00 RPM	1.85 RPM
SRP007412_heart	0.00 RPM	1.13 RPM
SRP007412_kidney	0.16 RPM	4.01 RPM
SRP007412_liver	0.03 RPM	3.19 RPM
SRP007412_testis	0.00 RPM	2.49 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_331 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_331 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_292
Pan troglodytes	retro_ptro_240
Pongo abelii	retro_pabe_382
Macaca mulatta	retro_mmul_551

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000014728	1 retrocopy	retro_cjac_333,
Dasypus novemcinctus	ENSDNOG00000017235	1 retrocopy	retro_dnov_2327,
Homo sapiens	ENSG00000151131	1 retrocopy	retro_hsap_292,
Gallus gallus	ENSGALG00000012694	1 retrocopy	retro_ggal_15,
Gorilla gorilla	ENSGGOG00000027272	1 retrocopy	retro_ggor_331 ,
Macaca mulatta	ENSMMUG00000017133	1 retrocopy	retro_mmul_551,
Nomascus leucogenys	ENSNLEG00000006584	1 retrocopy	retro_nleu_2414,
Pongo abelii	ENSPPYG00000004897	1 retrocopy	retro_pabe_382,
Pan troglodytes	ENSPTRG00000005381	1 retrocopy	retro_ptro_240,
Sus scrofa	ENSSSCG00000027792	2 retrocopies	retro_sscr_105, retro_sscr_153,
Tursiops truncatus	ENSTTRG00000005714	1 retrocopy	retro_ttru_1381,