RetrogeneDB ID: retro_mmul_2010

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 6:63856426..63856714(+)
• Located in intron of: ENSMMUG00000030044

Retrocopy information

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

Parental gene information

• Parental gene symbol: NAA38
• Ensembl ID: ENSMMUG00000015822
• Aliases: None
• Description: N-alpha-acetyltransferase 38, NatC auxiliary subunit [Source:RefSeq peptide;Acc:NP_001253526]

Sequence

>retro_mmul_2010
ATGACCTCCGCCTTGGAGAACTACGTCAACCGAACTGTTGCCGTTATTACATCTGATGGGAGAATGATTGTGGGAACACT
GAAAGGTTTTGACCAGACCATTAATTTGATTTTGAATGAAAGCCATGAGCGAGTATTCAGCTCTTCACAGGGGGTAAAGC
AAGTGGTACTGGGATTATACATTGTAAGAGGTGACAACGTTGCAGTCATTGGAGAAATTGATGAAGAAACAGATTCTGTG
CTTGATTTGGGGAATATTCGAGCAGAGCCTTTAAATTCTGTAGCACAC

Alignment

ORF - retro_mmul_2010 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.83 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTSALENYINRTVAVITSDGRMIVGTLKGFDQTINLILDESHERVFSSSQGVEQVVLGLYIVRGDNVAVI
          MTSALENY.NRTVAVITSDGRMIVGTLKGFDQTINLIL.ESHERVFSSSQGV.QVVLGLYIVRGDNVAVI
Retrocopy MTSALENYVNRTVAVITSDGRMIVGTLKGFDQTINLILNESHERVFSSSQGVKQVVLGLYIVRGDNVAVI

Parental  GEIDEETDSALDLGNIRAEPLNSVAH
          GEIDEETDS.LDLGNIRAEPLNSVAH
Retrocopy GEIDEETDSVLDLGNIRAEPLNSVAH

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	5.04 RPM
SRP007412_brain_prefrontal_cortex	0.08 RPM	4.28 RPM
SRP007412_cerebellum	0.00 RPM	6.72 RPM
SRP007412_heart	0.06 RPM	7.42 RPM
SRP007412_kidney	0.00 RPM	6.46 RPM
SRP007412_liver	0.04 RPM	5.30 RPM
SRP007412_testis	0.08 RPM	10.70 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2010 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2010 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2010 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001162	1 retrocopy	retro_amel_1716,
Echinops telfairi	ENSETEG00000011594	1 retrocopy	retro_etel_491,
Felis catus	ENSFCAG00000023642	1 retrocopy	retro_fcat_1993,
Myotis lucifugus	ENSMLUG00000006837	1 retrocopy	retro_mluc_161,
Macaca mulatta	ENSMMUG00000015822	1 retrocopy	retro_mmul_2010 ,
Mustela putorius furo	ENSMPUG00000007100	1 retrocopy	retro_mputfur_1440,
Oryctolagus cuniculus	ENSOCUG00000017359	2 retrocopies	retro_ocun_1715, retro_ocun_954,
Otolemur garnettii	ENSOGAG00000013377	1 retrocopy	retro_ogar_1071,
Ochotona princeps	ENSOPRG00000014809	2 retrocopies	retro_opri_1033, retro_opri_227,
Sarcophilus harrisii	ENSSHAG00000018435	1 retrocopy	retro_shar_535,
Ictidomys tridecemlineatus	ENSSTOG00000009039	3 retrocopies	retro_itri_1623, retro_itri_364, retro_itri_679,