RetrogeneDB ID: retro_mmul_2407

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 9:66781189..66781555(+)
• Located in intron of: ENSMMUG00000006397

Retrocopy information

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

Parental gene information

• Parental gene symbol: ISG12(C)
• Ensembl ID: ENSMMUG00000023780
• Aliases: None
• Description: interferon alpha-inducible protein 27 [Source:RefSeq peptide;Acc:NP_001041634]

Sequence

>retro_mmul_2407
ATGGTGGCCTCAGCTTTCACCTCATCAGCAGTGACCGGTGTGGCCAAAGTGGCCAGGGTGGCCTCTAGCCGTGCCGTAGT
CTTACCCCTGGCGAGGATTGCTACAGTCGTGATTGGAGGAGTTGTGGCCGTGGAGGCTGTGCCCATGGTGCTCAGCGCCA
TGGGCTTCACTGCGACGGGAATCACCTCGTCCTCCATAGCAGCCAAGATGATGTCCACAGTGGCCATTGCCAATGGGGGT
GGAGTTGCCCAGGGCAGCCTTGTGGCTACTCTGCAGTCACTGGGAGCAACTGGACTCTCCGGGTTGACCAAATTCATCCT
GGGCTCCACTGGGTCTGCCATTGTGGCTGGCATTGCGAGGTTCTAC

Alignment

ORF - retro_mmul_2407 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.62 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVASAFTSSAVTGVAKVARVASGCAVVLPLARIATVVIGGVVAVEAVPMVLGVMGFTATGITSSSIAAKM
          MVASAFTSSAVTGVAKVARVAS..AVVLPLARIATVVIGGVVAVEAVPMVL..MGFTATGITSSSIAAKM
Retrocopy MVASAFTSSAVTGVAKVARVASSRAVVLPLARIATVVIGGVVAVEAVPMVLSAMGFTATGITSSSIAAKM

Parental  MSAAAIANGGGVAPGSLVATLQSLGATGLSGLTRFILGSTGSAIAAGIARFY
          MS..AIANGGGVA.GSLVATLQSLGATGLSGLT.FILGSTGSAI.AGIARFY
Retrocopy MSTVAIANGGGVAQGSLVATLQSLGATGLSGLTKFILGSTGSAIVAGIARFY

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	2.22 RPM
SRP007412_cerebellum	0.00 RPM	0.90 RPM
SRP007412_heart	0.53 RPM	21.43 RPM
SRP007412_kidney	0.00 RPM	13.50 RPM
SRP007412_liver	9.70 RPM	116.26 RPM
SRP007412_testis	0.41 RPM	23.60 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2407 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2407 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2407 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	ENSMMUG00000023780	1 retrocopy	retro_mmul_2407 ,