RetrogeneDB ID: retro_mmul_1930

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 5:4296211..4296619(-)
• Located in intron of: ENSMMUG00000020204

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMMUG00000029653
• Aliases: None
• Description: None

Sequence

>retro_mmul_1930
AGAATCTTGCCAATGGCTGGTCGTGATCCTGAATGCCAACGCACAGAAATGATTAAGAAAGAAGAAGAACGTTTGAGGGC
TTCCATACGTAGGGAATCTCAGCAGCGCCGAATGAGAGAGAAACAGCACCAGCGGGGGCTGAGTGCCAGTTACCTGGAAC
CTGATCGATATGATGAGGAGGAGGAAGGCGAGGAGTCCATCAGCTTGGCTGCCATTAAAAACCGATATAAAGGGGGCATT
CGAGAGGAACGAGCCAGAATCTATTCATCAGACAGTGATGAGGGGTCAGAAGAAGATAAGGCTCAAAGATTACTCAAAGC
AAAGAAACTTACCAGTGATGAGGAGGGTGAACCTTCTGGAAAGAGAAAAGCAGAAGATGATGATAAAGCAAATAAAAAGC
ATAAGAAG

Alignment

ORF - retro_mmul_1930 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 100. %
• Parental protein coverage: 89.47 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RILPMAGRDPECQRTEMIKKEEERLRASIRRESQQRRMREKQHQRGLSASYLEPDRYDEEEEGEESISLA
          RILPMAGRDPECQRTEMIKKEEERLRASIRRESQQRRMREKQHQRGLSASYLEPDRYDEEEEGEESISLA
Retrocopy RILPMAGRDPECQRTEMIKKEEERLRASIRRESQQRRMREKQHQRGLSASYLEPDRYDEEEEGEESISLA

Parental  AIKNRYKGGIREERARIYSSDSDEGSEEDKAQRLLKAKKLTSDEEGEPSGKRKAEDDDKANKKHKK
          AIKNRYKGGIREERARIYSSDSDEGSEEDKAQRLLKAKKLTSDEEGEPSGKRKAEDDDKANKKHKK
Retrocopy AIKNRYKGGIREERARIYSSDSDEGSEEDKAQRLLKAKKLTSDEEGEPSGKRKAEDDDKANKKHKK

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	1.34 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	2.94 RPM
SRP007412_cerebellum	0.06 RPM	1.55 RPM
SRP007412_heart	0.00 RPM	1.12 RPM
SRP007412_kidney	0.00 RPM	2.00 RPM
SRP007412_liver	0.00 RPM	0.67 RPM
SRP007412_testis	0.00 RPM	2.56 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1930 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1930 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1930 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	ENSMMUG00000029653	1 retrocopy	retro_mmul_1930 ,