RetrogeneDB ID: retro_mmul_812

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 11:60202935..60203259(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM242
• Ensembl ID: ENSMMUG00000011814
• Aliases: None
• Description: None

Sequence

>retro_mmul_812
GAGACAGCGGGCTCTGGGATTGGGCAGCCAGCCTCTCTGCTGGAGGCTCTGGGGTCCACGGATGACTGTCTTTTCCTGGT
TAAAGGTGGAATTTTCCTTGGTACTGTTGATGCAGCAGGAATGCTAGCTGGATTTATTACAACATTATCACTGGCTAAAA
AGAAAAGCCCTGCATGGTTCAATAAGGGAAGCATGGCCACGACTGCATTACCAGAAAGCAAGTCTTCCCTTGTCTTGCGA
GCTCTGGGCTGGGGCTCACTATATGTGTGGTGTGGGGTTGGTGTGATTAGCTGCTCAGTCTGGAAAGCTTTAGGAGTTCA
CAGT

Alignment

ORF - retro_mmul_812 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.96 %
• Parental protein coverage: 76.6 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ETAGAGTGQPASGLEAPGSTDDRLFLVKGGIFLGTVAAAGMLAGFITTLSLAKKKSPEWFNKGSMATAAL
          ETAG.G.GQPAS.LEA.GSTDD.LFLVKGGIFLGTV.AAGMLAGFITTLSLAKKKSP.WFNKGSMAT.AL
Retrocopy ETAGSGIGQPASLLEALGSTDDCLFLVKGGIFLGTVDAAGMLAGFITTLSLAKKKSPAWFNKGSMATTAL

Parental  PESGSSLALRALGWGSLYAWCGVGVISFAVWKALGVHS
          PES.SSL.LRALGWGSLY.WCGVGVIS..VWKALGVHS
Retrocopy PESKSSLVLRALGWGSLYVWCGVGVISCSVWKALGVHS

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	5.83 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	6.51 RPM
SRP007412_cerebellum	0.00 RPM	5.36 RPM
SRP007412_heart	0.00 RPM	3.59 RPM
SRP007412_kidney	0.00 RPM	4.34 RPM
SRP007412_liver	0.00 RPM	2.10 RPM
SRP007412_testis	0.00 RPM	2.15 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_812 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_812 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_812 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1016
Pan troglodytes	retro_ptro_747
Pongo abelii	retro_pabe_853

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009699	1 retrocopy	retro_amel_1551,
Cavia porcellus	ENSCPOG00000022213	1 retrocopy	retro_cpor_160,
Equus caballus	ENSECAG00000016335	1 retrocopy	retro_ecab_898,
Homo sapiens	ENSG00000215712	1 retrocopy	retro_hsap_1016,
Macaca mulatta	ENSMMUG00000011814	1 retrocopy	retro_mmul_812 ,
Nomascus leucogenys	ENSNLEG00000010676	1 retrocopy	retro_nleu_222,
Otolemur garnettii	ENSOGAG00000007646	1 retrocopy	retro_ogar_946,
Pongo abelii	ENSPPYG00000017271	1 retrocopy	retro_pabe_853,
Pan troglodytes	ENSPTRG00000018735	1 retrocopy	retro_ptro_747,