RetrogeneDB ID: retro_ggor_1016

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:83825989..83826387(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARF5
• Ensembl ID: ENSGGOG00000016749
• Aliases: None
• Description: None

Sequence

>retro_ggor_1016
GGCCTCACCATCTCCTCTTTCTTCTCCCACCTCTTTGACAAGAAGCAGATGCACATTTTGATGGTTGGATTGGATGCCGC
TGGCAAGACGACCATTCCGTATGAACTGAAGTTAGGGGAGATAGTCACCACCATTCCTACCGTTGGCTGCAATGTGGAAG
CGGTAGACTATAAAAACATTCGTCTCACAGTATGGGATGCTGGTGGTCAAGATAGAATTAGGCCTCTCCGGAAGTATTAC
TTCCCAAATACCCAATATCTTATATTTGTGGTAGATAGCAATAATCGTGAAAGAATTAAGGAGGTAGCAGGTGAGCTGCA
GAAATTGCTTCTGGTAGATGAGTTGAGAGAGGCAGTGCTGCTGCTTTTTGAGAATCACAGGATTTGCCAAATGCTCTT

Alignment

ORF - retro_ggor_1016 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.39 %
• Parental protein coverage: 73.89 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GLTVSALFSRIFGKKQMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNICFTVWDVGGQ
          GLT.S..FS..F.KKQM.ILMVGLDAAGKTTI.Y.LKLGEIVTTIPT.G.NVE.V.YKNI..TVWD.GGQ
Retrocopy GLTISSFFSHLFDKKQMHILMVGLDAAGKTTIPYELKLGEIVTTIPTVGCNVEAVDYKNIRLTVWDAGGQ

Parental  DKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFAN-KQDMPNAM
          D.IRPL...YF.NTQ.LIFVVDSN.RER..E.A.ELQK.L..DELR.AVLL.F.N..QD.PNA.
Retrocopy DRIRPLRKYYFPNTQYLIFVVDSNNRERIKEVAGELQKLLLVDELREAVLLLFEN<SQDLPNAL

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	91.40 RPM
SRP007412_cerebellum	0.00 RPM	87.46 RPM
SRP007412_heart	0.00 RPM	31.80 RPM
SRP007412_kidney	0.08 RPM	48.45 RPM
SRP007412_liver	0.11 RPM	49.41 RPM
SRP007412_testis	0.41 RPM	53.15 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_1016 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1016 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1296
Pan troglodytes	retro_ptro_888
Pongo abelii	retro_pabe_1075
Callithrix jacchus	retro_cjac_507

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000021790	1 retrocopy	retro_cint_10,
Dasypus novemcinctus	ENSDNOG00000013387	5 retrocopies	retro_dnov_1132, retro_dnov_1251, retro_dnov_1260, retro_dnov_1407, retro_dnov_2319,
Gorilla gorilla	ENSGGOG00000000294	1 retrocopy	retro_ggor_1552,
Gorilla gorilla	ENSGGOG00000004952	1 retrocopy	retro_ggor_373,
Gorilla gorilla	ENSGGOG00000011263	5 retrocopies	retro_ggor_161, retro_ggor_2531, retro_ggor_3071, retro_ggor_801, retro_ggor_906,
Gorilla gorilla	ENSGGOG00000016749	1 retrocopy	retro_ggor_1016 ,
Monodelphis domestica	ENSMODG00000015229	1 retrocopy	retro_mdom_905,
Otolemur garnettii	ENSOGAG00000013336	1 retrocopy	retro_ogar_378,
Tursiops truncatus	ENSTTRG00000006043	1 retrocopy	retro_ttru_493,