RetrogeneDB ID: retro_ggor_1999

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:175367873..175368188(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C11ORF51
• Ensembl ID: ENSGGOG00000012501
• Aliases: None
• Description: None

Sequence

>retro_ggor_1999
CCAGAAGTGACTGATACATTGTGATTTAAATCTATATTGAACCTGTGTAGAGGAGACAGAGCTGCAGCAGCAGGAACAGC
AGCATGAGGCTTTTAGCTTCACAGAGAAAGACAACAACCTGTTGCCTGAGCCAGGCTCAAAGAACTATGAGGACGAGGGG
GAGGACTACGAAGATGAGGAGGATAGTAAAAAATGGAGGATGAGCACATGCAGGACATGGATGACATGAATGATTTCAAT
GAGTAACCTGGTGATGGAGAGGTCAATGATGTGGATGTGGGAGGCAACAAACAGGATCAGGACAAGTGGACAATC

Alignment

ORF - retro_ggor_1999 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.14 %
• Parental protein coverage: 92.56 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PRVTETLWF-NLDRPCVEETELQQQEQQHQAWLQSIAEKDNNLVPIGKPASEHYDDEEEEDDEDDEDSEE
          P.VT.TL.F.NL...CVEETELQQQEQQH.A...S..EKDNNL.P...P.S..Y...E.E..........
Retrocopy PEVTDTL*F>NLY*TCVEETELQQQEQQHEAF--SFTEKDNNLLP--EPGSKNY---EDEGEDYEDEEDS

Parental  DS-EDDEDMQDMDEMNDYNESPDDGEVNEVDMEGNEQDQDQWMI
          .....DE.MQDMD.MND.NE.P.DGEVN.VD..GN.QDQD.W.I
Retrocopy KK<MEDEHMQDMDDMNDFNE*PGDGEVNDVDVGGNKQDQDKWTI

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	2.64 RPM
SRP007412_cerebellum	0.00 RPM	0.91 RPM
SRP007412_heart	0.00 RPM	1.56 RPM
SRP007412_kidney	0.00 RPM	3.76 RPM
SRP007412_liver	0.00 RPM	1.71 RPM
SRP007412_testis	0.00 RPM	4.87 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_1999 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1999 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pongo abelii	retro_pabe_2388
Bos taurus	retro_btau_269
Equus caballus	retro_ecab_470

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010843	1 retrocopy	retro_amel_298,
Bos taurus	ENSBTAG00000002999	2 retrocopies	retro_btau_252, retro_btau_269,
Canis familiaris	ENSCAFG00000005781	1 retrocopy	retro_cfam_1752,
Equus caballus	ENSECAG00000021041	1 retrocopy	retro_ecab_470,
Felis catus	ENSFCAG00000005321	1 retrocopy	retro_fcat_1350,
Gorilla gorilla	ENSGGOG00000012501	2 retrocopies	retro_ggor_1999 , retro_ggor_2977,
Myotis lucifugus	ENSMLUG00000014120	1 retrocopy	retro_mluc_238,
Mustela putorius furo	ENSMPUG00000010260	1 retrocopy	retro_mputfur_596,
Pteropus vampyrus	ENSPVAG00000015797	1 retrocopy	retro_pvam_404,
Sorex araneus	ENSSARG00000004171	2 retrocopies	retro_sara_444, retro_sara_686,
Tarsius syrichta	ENSTSYG00000014179	1 retrocopy	retro_tsyr_35,
Tursiops truncatus	ENSTTRG00000010773	1 retrocopy	retro_ttru_277,