RetrogeneDB ID: retro_mmul_865

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 11:46501760..46502112(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF780A
• Ensembl ID: ENSMMUG00000003826
• Aliases: None
• Description: None

Sequence

>retro_mmul_865
AGAAGCCCGAGGAAGATTGACCAAATTTTGTAATTCTAGAAACATGGTCCATGGATCAGTGACATTCAGGGATGTGGCCA
TTGACTTCTCTCAGGAGGAGTGGGAGTGCCTGCAGCCTGATCAGAGGACCTTGTACAGGAATGTGATGTTGGAGAACTAC
AGCCACCTGATCTCACTGGGAAGTTCCATTTCTAAGCCAGATGTGATTACGTTACTAGAGCAAGAGAAAGAGCCCTGGAT
TGTTGTAAGGAAAGAAACAAGCAGATGGTATTCAGATTTGGAGTCAAAATACGGACCTGAGAAAGTATCTCCAGAAAATG
ATATTTTTGAAATAAATTTACCCAAACATGTT

Alignment

ORF - retro_mmul_865 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.53 %
• Parental protein coverage: 74.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RSTRKIDQ-FCNSRNMVHGSVTFRDVAIDFSQEEWECLQPDQRTLYRDVMLENYSHLISLGGSISKPDVI
          RS.RKIDQ.FCNSRNMVHGSVTFRDVAIDFSQEEWECLQPDQRTLYR.VMLENYSHLISLG.SISKPDVI
Retrocopy RSPRKIDQ>FCNSRNMVHGSVTFRDVAIDFSQEEWECLQPDQRTLYRNVMLENYSHLISLGSSISKPDVI

Parental  TLLEQEKEPWMVVRKETSRWYPDLESKYGPEKVSPENDISEVNLPKQI
          TLLEQEKEPW.VVRKETSRWY.DLESKYGPEKVSPENDI.E.NLPK..
Retrocopy TLLEQEKEPWIVVRKETSRWYSDLESKYGPEKVSPENDIFEINLPKHV

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	0.22 RPM	16.92 RPM
SRP007412_brain_prefrontal_cortex	0.32 RPM	9.84 RPM
SRP007412_cerebellum	0.26 RPM	21.50 RPM
SRP007412_heart	0.29 RPM	2.94 RPM
SRP007412_kidney	0.23 RPM	5.63 RPM
SRP007412_liver	0.08 RPM	2.02 RPM
SRP007412_testis	1.28 RPM	18.77 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_865 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_865 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_865 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	ENSMMUG00000003826	1 retrocopy	retro_mmul_865 ,