RetrogeneDB ID: retro_mmul_134

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 20:68227715..68228399(-)
• Located in intron of: ENSMMUG00000003339

Retrocopy information

• Ensembl ID: ENSMMUG00000029091
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMMUG00000029462
• Aliases: None
• Description: Protein-L-isoaspartate O-methyltransferase [Source:UniProtKB/TrEMBL;Acc:F6RWQ4]

Sequence

>retro_mmul_134
ATGGCCTGGAAATCCGGCGGCGCCAGCCACTCGGAGCTAATCCACAATCTCCGCAAAAACGGAATCATCAAGACAGATAA
AGTATTTGAAGTGATGCTAGCTACAGACCGCTCTCACTATGCAAAATGTAACCCTTACATGGATTCTCCACAATCAATAG
GTTTCCAAGCAACAATCAGTGCTCCACACATGCATGCATATGCACTAGAACTTCTATTTGATCAGTTGCATGAAGGAGCT
AAAGCTCTTGATGTAGGATCTGGAAGTGGAATCCTTACTGCATGTTTTGCACGTATGGTTGGATGTACTGGAAAAGTCAT
AGGAATTGATCACATTAAAGAGCTAGTAGATGACTCAATAAATAATGTCAGGAAGGACGATCCAACACTTCTGTCTTCAG
GGAGAGTACAGCTTGTTGTGGGGGATGGAAGAATGGGATATGCTGAAGAAGCCCCTTATGACGCCATTCATGTAGGAGCT
GCAGCCCCCGTTGTACCCCAGGCACTAATAGACCAGTTAAAGCCTGGAGGAAGATTGATATTGCCAGTTGGTCCTGCAGG
TGGAAACCAAATGTTGGAGCAGTATGACAAGCTACAAGATGGCAGCGTCAAAATGAAGCCTCTGATGGGGGTGATATACG
TGCCTTTAACAGATAAAGAAAAGCAGTGGTCCAGGTGGAAGTGA

Alignment

ORF - retro_mmul_134 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

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

Retrocopy - Parental Gene Alignment:

Parental  MAWKSGGASHSELIHNLRKNGIIKTDKVFEVMLATDRSHYAKCNPYMDSPQSIGFQATISAPHMHAYALE
          MAWKSGGASHSELIHNLRKNGIIKTDKVFEVMLATDRSHYAKCNPYMDSPQSIGFQATISAPHMHAYALE
Retrocopy MAWKSGGASHSELIHNLRKNGIIKTDKVFEVMLATDRSHYAKCNPYMDSPQSIGFQATISAPHMHAYALE

Parental  LLFDQLHEGAKALDVGSGSGILTACFARMVGCTGKVIGIDHIKELVDDSINNVRKDDPTLLSSGRVQLVV
          LLFDQLHEGAKALDVGSGSGILTACFARMVGCTGKVIGIDHIKELVDDSINNVRKDDPTLLSSGRVQLVV
Retrocopy LLFDQLHEGAKALDVGSGSGILTACFARMVGCTGKVIGIDHIKELVDDSINNVRKDDPTLLSSGRVQLVV

Parental  GDGRMGYAEEAPYDAIHVGAAAPVVPQALIDQLKPGGRLILPVGPAGGNQMLEQYDKLQDGSVKMKPLMG
          GDGRMGYAEEAPYDAIHVGAAAPVVPQALIDQLKPGGRLILPVGPAGGNQMLEQYDKLQDGSVKMKPLMG
Retrocopy GDGRMGYAEEAPYDAIHVGAAAPVVPQALIDQLKPGGRLILPVGPAGGNQMLEQYDKLQDGSVKMKPLMG

Parental  VIYVPLTDKEKQWSRWK
          VIYVPLTDKEKQWSRWK
Retrocopy VIYVPLTDKEKQWSRWK

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	50.20 RPM
SRP007412_brain_prefrontal_cortex	2.38 RPM	81.79 RPM
SRP007412_cerebellum	0.13 RPM	35.00 RPM
SRP007412_heart	0.18 RPM	23.14 RPM
SRP007412_kidney	0.00 RPM	9.62 RPM
SRP007412_liver	0.00 RPM	9.26 RPM
SRP007412_testis	0.38 RPM	34.60 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_134 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_134 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_134 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009230	1 retrocopy	retro_cjac_75,
Macaca mulatta	ENSMMUG00000029462	1 retrocopy	retro_mmul_134 ,
Oryctolagus cuniculus	ENSOCUG00000000499	2 retrocopies	retro_ocun_871, retro_ocun_955,
Ochotona princeps	ENSOPRG00000002833	2 retrocopies	retro_opri_171, retro_opri_434,
Tupaia belangeri	ENSTBEG00000000451	1 retrocopy	retro_tbel_883,