RetrogeneDB ID: retro_mmul_2516

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: X:88518270..88518577(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000007311
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: GJA10
• Ensembl ID: ENSMMUG00000010135
• Aliases: None
• Description: Gap junction protein [Source:UniProtKB/TrEMBL;Acc:F6QYD8]

Sequence

>retro_mmul_2516
ATGGCCTATTACAAAGCCGCCGACTCGAAGCGTGAGCAGTTCCAGAGGTACTTGGAGAAGTTGAGGGTGCTGGACACGCT
GACCAAGGTGTTGGTAGCCTTATATAAAGAACCAGAGAAACCTAACAGTGCTTTGGATTTTTTAAAGCATCGCTTAGGAG
CTGCTACCCCAGAGAATCCAGAAAGAGCTGCTTCGCCTAGAACTGACCAAAATGAAAGAGAAATCTGAAGCTACTGTAGA
AGTAAATAAAAAACTGAAAGCAAAGCTTGCTCAGTATGAACCACCTCAGGAGAAGAAGCGTGCGGAA

Alignment

ORF - retro_mmul_2516 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.19 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAHYKAADSKREQFRRYLEKSGVLDTLTKVLVALYEEPEKPNSALD-FLKHHLGAA-TPENPEIELLRLE
          MA.YKAADSKREQF.RYLEK..VLDTLTKVLVALY.EPEKPNSALD.F.K..L.....P.....ELLRLE
Retrocopy MAYYKAADSKREQFQRYLEKLRVLDTLTKVLVALYKEPEKPNSALD<FFKASLRSC<LPQRIQKELLRLE

Parental  LAEMKEKYEAIVEENKKLKAKLAQYEPPQEEKRAE
          L..MKEK.EA.VE.NKKLKAKLAQYEPPQE.KRAE
Retrocopy LTKMKEKSEATVEVNKKLKAKLAQYEPPQEKKRAE

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	3.81 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	2.38 RPM
SRP007412_cerebellum	0.00 RPM	7.88 RPM
SRP007412_heart	0.00 RPM	6.48 RPM
SRP007412_kidney	0.00 RPM	13.73 RPM
SRP007412_liver	0.00 RPM	4.59 RPM
SRP007412_testis	0.04 RPM	45.95 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2516 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2516 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2516 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000010135	1 retrocopy	retro_mmul_2516 ,