RetrogeneDB ID: retro_mmul_270

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 3:2054193..2054532(+)
• Located in intron of: ENSMMUG00000022561

Retrocopy information

• Ensembl ID: ENSMMUG00000030498
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: KRTAP12-3
• Ensembl ID: ENSMMUG00000022561
• Aliases: None
• Description: None

Sequence

>retro_mmul_270
ATGTGCCACACCAGCTGCTCTTCAGGCTGCCCGATGGCCTGCCCTGGCTCCCCATGCTGCGTCCCCAGCACCTGCTACCC
ACCCCAGGGCTGTGGGACCTCCTGCTGCTGCTCAGCCCCCTGTGTGATTCTGCTGTGCCAGCCCCTGTGTGGGGTGTCCA
CCTGCTGCCAGCCGGCCTGCTGTGTGCCCAGCCCCTGTCAGGTGGCCTGCTGTGTGTCTGTGAGCTGCAAGCCTGTTTTG
TGTGTGGCCTCCTTCTGCCCAACCTCTGGGTGCTGCCAGCCCTCCTGCCCCACCCTGGTCTATAGACCGGTCACCTGCAG
CACCCCCACCTGCTGCTGA

Alignment

ORF - retro_mmul_270 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.5 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TSCCRPSSSVSLICRPVCSCSPGCQPTCCIPSPCQASCYMPVSCQPIIYVTPSCQSSGCCQPPCTTVLCR
          TSCC.....V.L.C.P.C..S..CQP.CC.PSPCQ..C...VSC.P...V...C..SGCCQP.C.T...R
Retrocopy TSCCCSAPCVILLCQPLCGVSTCCQPACCVPSPCQVACCVSVSCKPVLCVASFCPTSGCCQPSCPTLVYR

Parental  PISCSAPSCC
          P..CS.P.CC
Retrocopy PVTCSTPTCC

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	0.00 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	0.00 RPM
SRP007412_testis	0.00 RPM	0.00 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_270 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_270 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_270 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000003471	3 retrocopies	retro_lafr_1084, retro_lafr_1085, retro_lafr_1086,
Macaca mulatta	ENSMMUG00000022561	1 retrocopy	retro_mmul_270 ,