RetrogeneDB ID: retro_mmul_1252

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 16:29622247..29622547(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MMU.2318
• Ensembl ID: ENSMMUG00000014466
• Aliases: None
• Description: membrane-associated progesterone receptor component 1 [Source:RefSeq peptide;Acc:NP_001181847]

Sequence

>retro_mmul_1252
GGCAAGGTGTTCAACATGACCAGAGATTGCAAGTTCCAAGGGCCAAGGGGCCGCACAGGATCTTTGCCGAAAGAGATACA
TCCAGAGGCCCTGCCACATTTTGCCTGGATAAGGTAGCACTGCAGGACAAGCATGATGACTTTTCTGACCTCCCTCCTGC
CCAGCAGGAGACCTTGAGTGACTGGGCCTCTCAGTTCGCATTCAAGTATCCTCACCTGGATAAACTGCTGAAGGAGGGGA
GGTACCCACTGTAGATTCAGAAAGGAAGAACCAAAAGATGAGAATGTTCAGAAAAATGAT

Alignment

ORF - retro_mmul_1252 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.35 %
• Parental protein coverage: 51.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GKVFDVTKGRKFYGP-EGPYGVFAGRDASRGLATFCLDKEALKDEYDDLSDLTAAQQETLSDWESQFTFK
          GKVF..T...KF.GP..GP...FA.RD.SRG.ATFCLDK.AL.D..DD.SDL..AQQETLSDW.SQF.FK
Retrocopy GKVFNMTRDCKFQGP<KGPHRIFAERDTSRGPATFCLDKVALQDKHDDFSDLPPAQQETLSDWASQFAFK

Parental  YHHVGKLLKE-GEEPTVYSD-EEEPKDESARKND
          Y.H..KLLKE.GE.PTV.S...EEPKDE...KND
Retrocopy YPHLDKLLKE<GEVPTVDSE<KEEPKDENVQKND

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	91.32 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	98.85 RPM
SRP007412_cerebellum	0.00 RPM	61.80 RPM
SRP007412_heart	0.00 RPM	11.42 RPM
SRP007412_kidney	0.00 RPM	160.68 RPM
SRP007412_liver	0.00 RPM	381.19 RPM
SRP007412_testis	0.00 RPM	3.39 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1252 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1252 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1252 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1824
Gorilla gorilla	retro_ggor_2170
Pongo abelii	retro_pabe_1491

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018372	1 retrocopy	retro_cfam_1237,
Homo sapiens	ENSG00000101856	1 retrocopy	retro_hsap_1824,
Macaca mulatta	ENSMMUG00000014466	1 retrocopy	retro_mmul_1252 ,
Nomascus leucogenys	ENSNLEG00000014842	1 retrocopy	retro_nleu_2797,
Pongo abelii	ENSPPYG00000020666	1 retrocopy	retro_pabe_1491,
Rattus norvegicus	ENSRNOG00000012786	1 retrocopy	retro_rnor_1461,
Ictidomys tridecemlineatus	ENSSTOG00000024047	1 retrocopy	retro_itri_1619,