RetrogeneDB ID: retro_mmul_931

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 12:91542740..91542911(+)
• Located in intron of: ENSMMUG00000013248

Retrocopy information

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

Parental gene information

• Parental gene symbol: MMU.2648
• Ensembl ID: ENSMMUG00000011336
• Aliases: None
• Description: None

Sequence

>retro_mmul_931
ATGAAGCCGGCCGTGGACGAGATGTTCCCCGAGGGCGCCCGGCCTTACGTGGACCTGGACGAGGCGGGAGGCAGCACGGG
GCTCTTGATGGACTTGGCAGCCAATGAAAAGGCCGTTCATGCAGACTTTTTAAATGATTTTGAAGATCTTTTCGATGATG
ATGACATCCAG

Alignment

ORF - retro_mmul_931 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.49 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKPAVDEMFPEGAGPYVDLDEAGGSTGLLMDLAANEKAVHADFFNDFEDLFDDDDIQ
          MKPAVDEMFPEGA.PYVDLDEAGGSTGLLMDLAANEKAVHADF.NDFEDLFDDDDIQ
Retrocopy MKPAVDEMFPEGARPYVDLDEAGGSTGLLMDLAANEKAVHADFLNDFEDLFDDDDIQ

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	15.69 RPM
SRP007412_brain_prefrontal_cortex	0.08 RPM	39.51 RPM
SRP007412_cerebellum	0.00 RPM	12.66 RPM
SRP007412_heart	0.06 RPM	35.98 RPM
SRP007412_kidney	0.00 RPM	25.82 RPM
SRP007412_liver	0.00 RPM	7.64 RPM
SRP007412_testis	0.04 RPM	29.10 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_931 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_931 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_931 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000172428	1 retrocopy	retro_hsap_1414,
Macaca mulatta	ENSMMUG00000011336	2 retrocopies	retro_mmul_166, retro_mmul_931 ,
Monodelphis domestica	ENSMODG00000013501	1 retrocopy	retro_mdom_559,
Mus musculus	ENSMUSG00000073616	1 retrocopy	retro_mmus_3582,
Ictidomys tridecemlineatus	ENSSTOG00000000776	1 retrocopy	retro_itri_718,