RetrogeneDB ID: retro_mmul_434

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1:153571316..153571600(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COMMD8
• Ensembl ID: ENSMMUG00000021777
• Aliases: None
• Description: COMM domain-containing protein 8 [Source:RefSeq peptide;Acc:NP_001247814]

Sequence

>retro_mmul_434
TTGTGGCAGCTGCAGAAGCAGCCAGCTGAGCCTAACTCCCAGCTGATTCACAAGGTAATTGATGGCATTGTGTCTGGGCT
CATGCTCTATGTCAGGATTAGCACAGTGTTTCAGTTTCAAAGGAAGGCACACATTTTCTGAAAGGTATAAACAGACTTTT
AAAAACCTATAAATGGTGAGAAGTGTATGTCCAATGAAAAGATAGAAAAGCAATTGAATCAGTTGAATCATTTCACCAAG
AAATTATCATGAAGTGCTTGAAATGCAGGAAAGATGAAATAAAA

Alignment

ORF - retro_mmul_434 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.14 %
• Parental protein coverage: 51.37 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LWRLQKLPAELGPQLLHKIIDGI-CGRAYPVYQDYHTVWESEEWMHVLEDIAK-FFKAVVG-KNLSDEEI
          LW.LQK.PAE...QL.HK.IDGI.C..A....QD.H.V..S.E..H.L..I...F.K...G.K..S.E.I
Retrocopy LWQLQKQPAEPNSQLIHKVIDGI<CVWAHALCQD*HSVSVSKEGTHFLKGINR>F*KPINGEKCMSNEKI

Parental  FQQLNQLN-SFHQETIMKCVKSRKDEIK
          ..QLNQLN.SFHQE.IMKC.K.RKDEIK
Retrocopy EKQLNQLN<SFHQEIIMKCLKCRKDEIK

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	4.03 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	1.90 RPM
SRP007412_cerebellum	0.00 RPM	4.39 RPM
SRP007412_heart	0.06 RPM	2.36 RPM
SRP007412_kidney	0.35 RPM	13.97 RPM
SRP007412_liver	0.00 RPM	1.86 RPM
SRP007412_testis	0.00 RPM	4.07 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_434 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_434 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_434 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001348	1 retrocopy	retro_btau_579,
Echinops telfairi	ENSETEG00000020257	3 retrocopies	retro_etel_1416, retro_etel_182, retro_etel_210,
Felis catus	ENSFCAG00000023811	1 retrocopy	retro_fcat_421,
Myotis lucifugus	ENSMLUG00000011376	1 retrocopy	retro_mluc_1158,
Macaca mulatta	ENSMMUG00000021777	1 retrocopy	retro_mmul_434 ,
Ochotona princeps	ENSOPRG00000000739	1 retrocopy	retro_opri_805,
Ictidomys tridecemlineatus	ENSSTOG00000001221	1 retrocopy	retro_itri_1566,