RetrogeneDB ID: retro_ggor_1274

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 16:62266384..62266717(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC25
• Ensembl ID: ENSGGOG00000009685
• Aliases: None
• Description: None

Sequence

>retro_ggor_1274
CATGAAGATCTGATGAAGCGTGGCTGGCCTGAATATATCTGGTTTCGTGCGGACAGACTCTCTTTGGCTCATGTATACCT
TCAATTGCATAAGGGAGAGAATATAGAAGACATTCCGAAGGAACAGCTGACAGACTGCGCCCACCTTGTGAAGGCCAGTA
GCACTCAAGGCTGCAAGAACAACTTTAATGTGGTAAATACGCCATGGTCTAACCTGAAGAAAACAGCTGACGTGGATGTG
AGGCAGATAGGCTTTCACAGGCAGGATGTAAAAATTGTGACAATGGAGAAGAAAGTAAATGAGATCCTGAACCGATTAGA
AAAAACCAAAGTG

Alignment

ORF - retro_ggor_1274 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.3 %
• Parental protein coverage: 54.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NEDLIKHGWPEDIWFHVDKLSSAHVYLRLHKGENIEDIPKEVLMDCAHLVKANSIQGCKMNNVNVVYTPW
          .EDL.K.GWPE.IWF..D.LS.AHVYL.LHKGENIEDIPKE.L.DCAHLVKA.S.QGCK.NN.NVV.TPW
Retrocopy HEDLMKRGWPEYIWFRADRLSLAHVYLQLHKGENIEDIPKEQLTDCAHLVKASSTQGCK-NNFNVVNTPW

Parental  SNLKKTADMDVGQIGFHRQKDVKIVTVEKKVNEILNRLEKTKV
          SNLKKTAD.DV.QIGFHRQ.DVKIVT.EKKVNEILNRLEKTKV
Retrocopy SNLKKTADVDVRQIGFHRQ-DVKIVTMEKKVNEILNRLEKTKV

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	63.68 RPM
SRP007412_cerebellum	0.00 RPM	29.39 RPM
SRP007412_heart	0.00 RPM	7.13 RPM
SRP007412_kidney	0.00 RPM	35.98 RPM
SRP007412_liver	0.03 RPM	20.28 RPM
SRP007412_testis	0.00 RPM	51.80 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_1274 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1274 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1701
Pongo abelii	retro_pabe_1364

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012971	2 retrocopies	retro_chof_2254, retro_chof_847,
Dipodomys ordii	ENSDORG00000006595	1 retrocopy	retro_dord_491,
Echinops telfairi	ENSETEG00000006478	1 retrocopy	retro_etel_434,
Homo sapiens	ENSG00000147419	1 retrocopy	retro_hsap_1701,
Gorilla gorilla	ENSGGOG00000009685	1 retrocopy	retro_ggor_1274 ,
Monodelphis domestica	ENSMODG00000015976	1 retrocopy	retro_mdom_511,
Pongo abelii	ENSPPYG00000018468	2 retrocopies	retro_pabe_1364, retro_pabe_477,
Pan troglodytes	ENSPTRG00000020109	1 retrocopy	retro_ptro_141,
Tarsius syrichta	ENSTSYG00000000732	1 retrocopy	retro_tsyr_1364,