RetrogeneDB ID: retro_mmul_2353

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 8:82993124..82993496(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: OCIAD2
• Ensembl ID: ENSMMUG00000014869
• Aliases: None
• Description: OCIA domain-containing protein 2 [Source:RefSeq peptide;Acc:NP_001253920]

Sequence

>retro_mmul_2353
AAACTGCACATTCACAGAGGAGAGATTTCAACCATTATAAGAGGATGTCAAGAAGAAAGTTTCTGGAAGAGAGCTCTGCC
TTTTTCTCCTGTAAGCATGTTCGTCACCCAGGGACTGTTCTGCCAACGTTATTTAGCAGCTAATCCAAGATTTGGATCAT
TGCCTAAAGTTACACTTGTTGGTATCTTGGGATTTGGCCTTGGAAAGGTATCATACATGAGAGTATGCCAGAGTAAATTC
CATTTCTTTGAAGATCAGCTCCATGGGGCTGGTTTTGGTCCACAGCAGAACAGGCATTGATTGCTTACCTGTGAAGAATG
CAACATGAAGCATAGATTCAGTGAGAAGGGAAGTTCACAGCCTTTGGCTTCC

Alignment

ORF - retro_mmul_2353 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.65 %
• Parental protein coverage: 80.52 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KLHIHRAEISKIMRECQEESFWKRALPFSLVSMLVTQGLVYQGYLAANPRFGSLPKVALAGLLGFGLGKV
          KLHIHR.EIS.I.R.CQEESFWKRALPFS.VSM.VTQGL..Q.YLAANPRFGSLPKV.L.G.LGFGLGKV
Retrocopy KLHIHRGEISTIIRGCQEESFWKRALPFSPVSMFVTQGLFCQRYLAANPRFGSLPKVTLVGILGFGLGKV

Parental  SYIGVCQSKFYFFEDQLRGAGFGPQHNRHCLLTCEECKIKHGLSEKGDSQPSAS
          SY..VCQSKF.FFEDQL.GAGFGPQ.NRH.LLTCEEC..KH..SEKG.SQP.AS
Retrocopy SYMRVCQSKFHFFEDQLHGAGFGPQQNRH*LLTCEECNMKHRFSEKGSSQPLAS

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	0.00 RPM	5.60 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	6.90 RPM
SRP007412_cerebellum	0.00 RPM	6.01 RPM
SRP007412_heart	0.00 RPM	1.65 RPM
SRP007412_kidney	0.12 RPM	9.15 RPM
SRP007412_liver	0.00 RPM	12.86 RPM
SRP007412_testis	0.04 RPM	0.19 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2353 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2353 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2353 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4082

---

Parental genes homology:

Parental genes homology involve 13 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018637	1 retrocopy	retro_cjac_1505,
Erinaceus europaeus	ENSEEUG00000006759	1 retrocopy	retro_eeur_504,
Homo sapiens	ENSG00000145247	1 retrocopy	retro_hsap_4082,
Gorilla gorilla	ENSGGOG00000013778	1 retrocopy	retro_ggor_2738,
Microcebus murinus	ENSMICG00000006147	1 retrocopy	retro_mmur_1402,
Macaca mulatta	ENSMMUG00000014869	1 retrocopy	retro_mmul_2353 ,
Monodelphis domestica	ENSMODG00000025531	1 retrocopy	retro_mdom_1006,
Nomascus leucogenys	ENSNLEG00000017430	1 retrocopy	retro_nleu_2048,
Oryctolagus cuniculus	ENSOCUG00000007907	2 retrocopies	retro_ocun_1734, retro_ocun_1780,
Otolemur garnettii	ENSOGAG00000011039	1 retrocopy	retro_ogar_561,
Pongo abelii	ENSPPYG00000014722	1 retrocopy	retro_pabe_3350,
Pan troglodytes	ENSPTRG00000016048	1 retrocopy	retro_ptro_2768,
Vicugna pacos	ENSVPAG00000011765	1 retrocopy	retro_vpac_331,