RetrogeneDB ID: retro_ggor_2721

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:45978173..45978709(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDCA8
• Ensembl ID: ENSGGOG00000007719
• Aliases: None
• Description: None

Sequence

>retro_ggor_2721
TCCTTTCTTAATGACTTCAGCCATGGAGGACAGCACAATTTAAGCTAACTCAGTGAGACAGGAAGAACTCCTCACAGAGA
GCGAGAACCTGCACAACCATGGCATCCTCGGCTCCCCACAGTGCTGCAGGAGATGCCCTGGCTCAACTACTTTGTCCTTG
GAAGAAACAAACAGTGCCTGGACCAAGAGGTGGTGGCAGCTGACCTGGATGGCACAGAAATACACACACTCACAGCCAGA
GCTTTGCACACAGCCCTGAAACCTTCCACAGCACAGAAAGCAATACAAGTGGATGAAACCACGGTGGAACAAGAGAAAAT
ATACAGAAGAATCTTCAAACTGCAAGAGTCGAAAGGGATCCTCCATGGAAGAAGAAAACCCAGTTTATACTAGGAAAAGG
AAAGGCAAGATGTCAAAGCCGTTGTGGCACTGTGGCCCCAGTAGGGGCTGGCTGGAGCTGCCTATGGTGAAGTCAACACT
GGGCCTGACACCCAGGCTTGGCACGAGGGTTCTTCAAGCCCCCTGGCCTGTGCACC

Alignment

ORF - retro_ggor_2721 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.03 %
• Parental protein coverage: 65. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  SFLKDFDREVE-IRIKQIESDRQN-LLKEVDNLYNIEIL-RLPKALREMNWLDYFALGGNKQALE-EAAT
          SFL.DF.........K....DR.N.LL.E..NL.N..IL.RLP..L.EM.WL.YF.LG.NKQ.L..E...
Retrocopy SFLNDFSHGGQ<AQFKLTQ*DRKN<LLTESENLHNHGIL<RLPTVLQEMPWLNYFVLGRNKQCLDQEVVA

Parental  ADLDITEINKLTAEAIQTPLKSAKTRKVIQVDEMIVEEEEEE-ENERKNLQTARVRRCPPSKKRTQSIQG
          ADLD.TEI..LTA.A..T.LK.....K.IQVDE..V...E.E.EN..KNLQTARV.R.PP.KK.TQ.I.G
Retrocopy ADLDGTEIHTLTARALHTALKPSTAQKAIQVDETTV---EQE<ENIQKNLQTARVERDPPWKKKTQFILG

Parental  KGKRKRSSRANTVT-PAVGRLEVSMVKPTPGLTPRFDSRV-FKTPGLRT
          KGK....SR..TV..P..G.LE..MVK.T.GLTPR...RV.FK.PGL.T
Retrocopy KGKARCQSRCGTVA<PSRGWLELPMVKSTLGLTPRLGTRV>FKPPGLCT

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	0.86 RPM
SRP007412_cerebellum	0.00 RPM	0.87 RPM
SRP007412_heart	0.00 RPM	0.09 RPM
SRP007412_kidney	0.00 RPM	0.65 RPM
SRP007412_liver	0.00 RPM	0.66 RPM
SRP007412_testis	0.10 RPM	46.52 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_2721 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2721 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000028556	2 retrocopies	retro_acar_139, retro_acar_200,
Choloepus hoffmanni	ENSCHOG00000004959	1 retrocopy	retro_chof_679,
Callithrix jacchus	ENSCJAG00000002008	1 retrocopy	retro_cjac_380,
Homo sapiens	ENSG00000134690	1 retrocopy	retro_hsap_4052,
Gorilla gorilla	ENSGGOG00000007719	2 retrocopies	retro_ggor_2594, retro_ggor_2721 ,
Microcebus murinus	ENSMICG00000011926	1 retrocopy	retro_mmur_1589,
Macaca mulatta	ENSMMUG00000014340	2 retrocopies	retro_mmul_1611, retro_mmul_2339,
Nomascus leucogenys	ENSNLEG00000011630	2 retrocopies	retro_nleu_2803, retro_nleu_3006,
Pongo abelii	ENSPPYG00000001526	2 retrocopies	retro_pabe_3224, retro_pabe_3234,
Pan troglodytes	ENSPTRG00000000552	3 retrocopies	retro_ptro_2531, retro_ptro_2533, retro_ptro_2746,