RetrogeneDB ID: retro_mmul_746

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1099214786536:2..410(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDUFS7
• Ensembl ID: ENSMMUG00000003045
• Aliases: None
• Description: NADH dehydrogenase (ubiquinone) Fe-S protein 7, 20kDa (NADH-coenzyme Q reductase) [Source:HGNC Symbol;Acc:7714]

Sequence

>retro_mmul_746
CGTAAGAACTCCCTGTGGCCGTACAACTTCGGTCTGTCCTGCTGCTACGTGGAAATGACCACCGCCTTCACGGCGCCCCA
CGACATCGCGCGCTTTGGCGCCGAAGTTATCCGGGCATCGCCGCGTCAGGCGGATTTCATGGTTATCGCCGGTACCTGCT
TTATCAAGATGGCGCCGATCATTCAGCGTCTCTACGAGCAAATGCTCGAGCCAAAGTGGGTTATCTCCATGGGTTCGTGC
GCCAACTCCGGTGGCATGTACGACATCTACTCCGTAGTTCAGGGGGTGGACAAGTTCCTGCCCGTGGACGTCTACGTGCC
TGGCTGCCCGCCCCGCCCTGAAGCATTTCTGCAAGGCTTGATGCTGTTGCAGGAATCGATTGGCAAGGAGCGTCGCCCAC
TTTCCTGG

Alignment

ORF - retro_mmul_746 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.74 %
• Parental protein coverage: 63.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGV-VFRASPRQSDVMIVAGTLTNKMAPALRKVYDQMPE
          R..SLWP..FGL.CC.VEM........D..RFG..V.RASPRQ.D.M..AGT...KMAP.....Y.QM.E
Retrocopy RKNSLWPYNFGLSCCYVEMTTAFTAPHDIARFGAEVIRASPRQADFMVIAGTCFIKMAPIIQRLYEQMLE

Parental  PRYVISMGSCANGGGYYHYSYSVVRGCDRIVPVDIYIPGCPPTAEALLYGVLQLQRKIKRERKVQIW
          P..VISMGSCAN.GG.Y...YSVV.G.D...PVD.Y.PGCPP..EA.L.G...LQ..I..ER....W
Retrocopy PKWVISMGSCANSGGMYDI-YSVVQGVDKFLPVDVYVPGCPPRPEAFLQGLMLLQESIGKERRPLSW

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	4.82 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	66.72 RPM
SRP007412_cerebellum	0.00 RPM	7.36 RPM
SRP007412_heart	0.00 RPM	39.10 RPM
SRP007412_kidney	0.00 RPM	16.55 RPM
SRP007412_liver	0.00 RPM	118.12 RPM
SRP007412_testis	0.00 RPM	22.73 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_746 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_746 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_746 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000005587	1 retrocopy	retro_cjac_1242,
Macaca mulatta	ENSMMUG00000003045	1 retrocopy	retro_mmul_746 ,
Xenopus tropicalis	ENSXETG00000003702	1 retrocopy	retro_xtro_48,