RetrogeneDB ID: retro_mmul_927

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 12:82386368..82387004(+)
• Located in intron of: ENSMMUG00000015218

Retrocopy information

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

Parental gene information

• Parental gene symbol: RC3H2
• Ensembl ID: ENSMMUG00000021134
• Aliases: RC3H2, MNAB
• Description: RING finger and CCCH-type zinc finger domain-containing protein 2 [Source:RefSeq peptide;Acc:NP_001252931]

Sequence

>retro_mmul_927
ATGCCTGTGCAGGCAGCTCAATGGACAGAATTTCTGTCCTGTCCAATCTGCTATAATGAATTTGATGAGAATGTGCACAA
ACCCATCAGTTCAGGTTGTTCACACACTGTTTGCAAGACCTGCTTGAATAAACTTCATCGAAAAGCTTGTCCTTTTGACC
AGACTGCCATCAACACAGATATTGATGTACTTCCTATCAACTTTGCACTTCTCCAGTTAGTTGGAGCCCAGGTACCAGAT
CATCAGTCAATTAAGTTAAGTAATCTAGGTAAGAATAAACACTATGAGGTTGCAAAGAAATGCATTGAGGATTTGGCACT
CTACTTAAAACCACGAAGTAGAGGTAAAGGTGTAGCTAGTTTGAACCAGAGTGCACTGAGCCATCCAATGCAAAGGAAAC
TGGTGACACTTGTAAACTGTCAACTGATGGAGGAAGAAGGTCGCGTAAGAGCCACAAAAGCAGCTCGTTTCCTCGGAGAA
AGAACTGTAACAGAATTGATATTACAACACCAGAACCCTCAGCAGTTGTCTGCCAATCTATGGGCCGCTGTCAGGGCTCG
AGGATGCCAGTTTTTAGGGCCAGGTAAGATAGGTTACTATCTTACCTTTTTTATTAGCTATTGGGGCTTGAGGATC

Alignment

ORF - retro_mmul_927 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.4 %
• Parental protein coverage: 97.24 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPVQAAQWTEFLSCPICYNEFDENVHKPISLGCSHTVCKTCLNKLHRKACPFDQTAINTDIDVLPVNFAL
          MPVQAAQWTEFLSCPICYNEFDENVHKPIS.GCSHTVCKTCLNKLHRKACPFDQTAINTDIDVLP.NFAL
Retrocopy MPVQAAQWTEFLSCPICYNEFDENVHKPISSGCSHTVCKTCLNKLHRKACPFDQTAINTDIDVLPINFAL

Parental  LQLVGAQVPDHQSIKLSNLGENKHYEVAKKCVEDLALYLKPLSGGKGVASLNQSALSRPMQRKLVTLVNC
          LQLVGAQVPDHQSIKLSNLG.NKHYEVAKKC.EDLALYLKP.S.GKGVASLNQSALS.PMQRKLVTLVNC
Retrocopy LQLVGAQVPDHQSIKLSNLGKNKHYEVAKKCIEDLALYLKPRSRGKGVASLNQSALSHPMQRKLVTLVNC

Parental  QLVEEEGRVRAMRAARSLGERTVTELILQHQNPQQLSANLWAAVRARGCQFLGPGKIGYYLTFFISK-GL
          QL.EEEGRVRA..AAR.LGERTVTELILQHQNPQQLSANLWAAVRARGCQFLGPGKIGYYLTFFIS..GL
Retrocopy QLMEEEGRVRATKAARFLGERTVTELILQHQNPQQLSANLWAAVRARGCQFLGPGKIGYYLTFFISYWGL

Parental  RM
          R.
Retrocopy RI

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	0.11 RPM	53.34 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	41.49 RPM
SRP007412_cerebellum	0.13 RPM	59.34 RPM
SRP007412_heart	0.00 RPM	8.48 RPM
SRP007412_kidney	0.12 RPM	19.48 RPM
SRP007412_liver	0.00 RPM	7.32 RPM
SRP007412_testis	0.04 RPM	41.39 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_927 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_927 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_927 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	ENSMMUG00000021134	1 retrocopy	retro_mmul_927 ,