RetrogeneDB ID: retro_mmul_69

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 2:138454659..138456306(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000017212
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMMUG00000020125
• Aliases: None
• Description: None

Sequence

>retro_mmul_69
ATTTTATCTTCCAGGCAAGGACATTTGGACGGATCTTTTACATGTTCCATAAGAAGTGCAGCTTATAATCCAAGCTATTA
TTCAGATAATCCTTCCTCAGACAGTTTTCTTGGCTCAGGCGACTTAAGAACCTTTGGCCAGAGTGCAAATGGCCAATGGA
GAAATTCTACTCCATCATCAAGCTCATCTTTACAGAAATCAAGAAACAGCCGAAGTCTTTACCTCGAAACCCGAAAGACC
TCAAGTGGATTATCAAACATTTTTGCGGGAAAGTCAAACCATCACTGCCATGTATCTGCATATGAAAAATCTTTCCCTAT
TAAACCTGTTCCAAGTCCGTCTTGGAGTGGTTCATGTCGTCGAAGCCTTTTGAGCCCCAAGAAAACTCAGAGGCGACATG
TTAGTACAGCAGAAGAGACAGTTCAAGAGGAAGAAAGAGAGATTTACAGACAGCTGCTACAGATGGTCACAGGGAAACAG
TTTTCTATAGCCAAACCTACCACACATTTTCCTTTACACCTGTCTCAATGTTTTAGTTCCAGTAAAAATACTTTGAAAGA
CTCACTATTTAAAAGTGGAAACTCTTGTGCATCTCAGATCATTGGCTCTGATACTTCATCATCTGGATCTGCCAGCATTT
TAACTAACCAGGAACAGCTGTCCCACAGTATATATTCCCTCTCTTCTTATACCCCAGATGTTGTTGCATTTGGATCCAAA
GATTCTGATACTCTTCATCAACCCCCTCATCACCACTCTGTTCCACATCAGCCAGATAACTTAGCAGCTTCAAATACACA
ATCTGAAGGATCAGACTCTCTGATTTTACTGAAAGTGAAAGATTCCCAGACTCCAACTCCCAGTTCTACTTTCTTCCAGG
CAGAGCTGTGGATCAAAGAATTAACTAGTGTTTATGATTCTCGAGCACGAGAAAGATTGCGCCACATTGAAAAACAGAAA
GCATTGGCCTTACAGCTTCAAAACCAGGAAATGGAGAAAGAAATAAAGAATGTATTTCGTAATGGGAATAAGGATGAAGT
TCTCAGTGAAGCATTTCGCCTGACCATTACACGCAAAGATATTCAAACTCTAAACCATCTGAATTGGCTCAATGATGAGA
TCATCAATTTCTACATGAATATGCTGATGGAGCGAAGTAAAGAGAAGGGCTTGCCAAGTGTGCATGCATTTAATATGTTT
TTCTTCACTAAATTAAAAACGGCTGGTTATCAGGCAGTGAAACGTTGGACAAAGAAAGTAGATGTATTTTCTGTTGACAT
TCTTTTGGTGCCCATTCACCTGGGAGTGCACTGGTGTCTAGCTGTTGTGGACTTTAGAAAGAAGAATATTACCTATTACG
ACTCTATGGGTGGGATAAACAATGAAGCCTGCAGAATTCTCTTGCAATACCTAAAGCAAGAAAACATTGACAAGAAAAAG
ACAGAGTTTGACACCAATGGCTGGCAGCTCTTCAGCAAGAAAAGCCAGGAAATTCCACAGCAGATGAATGGAAGTGACTA
TGGGATGTTTGCCTGCAAATATGCTAACTGTATTACCAAAGACAGACCAATCAACTTCACACAGCAACACATGCCATACT
TCCGGAAGCGGATGGTCTGGGAGATCCTCCACCGAAAACTCTTGTGA

Alignment

ORF - retro_mmul_69 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.67 %
• Parental protein coverage: 52.32 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ILSSRQGHLDRSFTCSTRSAAYNPSYYSDNPSSDSFLGSGDLRTFGQSANGQWRNSTPSSSSSLQKSRNS
          ILSSRQGHLD.SFTCS.RSAAYNPSYYSDNPSSDSFLGSGDLRTFGQSANGQWRNSTPSSSSSLQKSRNS
Retrocopy ILSSRQGHLDGSFTCSIRSAAYNPSYYSDNPSSDSFLGSGDLRTFGQSANGQWRNSTPSSSSSLQKSRNS

Parental  RSLYLETRKTSSGLSNIFAGKSNHHCHVSAYEKSFPIKPVPSPSWSGSCRRSLLSPKKTQRRHVSTAEET
          RSLYLETRKTSSGLSNIFAGKSNHHCHVSAYEKSFPIKPVPSPSWSGSCRRSLLSPKKTQRRHVSTAEET
Retrocopy RSLYLETRKTSSGLSNIFAGKSNHHCHVSAYEKSFPIKPVPSPSWSGSCRRSLLSPKKTQRRHVSTAEET

Parental  VQEEEREIYRQLLQMVTGKQFSIAKPTTHFPLHLSRCLSSSKNTLKDSLFKNGNSCASQIIGSDTSSSGS
          VQEEEREIYRQLLQMVTGKQFSIAKPTTHFPLHLS.C.SSSKNTLKDSLFK.GNSCASQIIGSDTSSSGS
Retrocopy VQEEEREIYRQLLQMVTGKQFSIAKPTTHFPLHLSQCFSSSKNTLKDSLFKSGNSCASQIIGSDTSSSGS

Parental  ASILTNQEQLSHSVYSLSSYTPDVVAFGSKDSDTLHQPHHHHSVPHQPDNLAASNTQSEGSDSVILLKVK
          ASILTNQEQLSHS.YSLSSYTPDVVAFGSKDSDTLHQP.HHHSVPHQPDNLAASNTQSEGSDS.ILLKVK
Retrocopy ASILTNQEQLSHSIYSLSSYTPDVVAFGSKDSDTLHQPPHHHSVPHQPDNLAASNTQSEGSDSLILLKVK

Parental  DSQTPTPSSTFFQAELWIKELTSVYDSRARERLRQIEEQKALALQLQNQRLQEREHSV
          DSQTPTPSSTFFQAELWIKELTSVYDSRARERLR.IE.QKALALQLQNQ........V
Retrocopy DSQTPTPSSTFFQAELWIKELTSVYDSRARERLRHIEKQKALALQLQNQEMEKEIKNV

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	0.67 RPM	3.81 RPM
SRP007412_brain_prefrontal_cortex	0.16 RPM	3.09 RPM
SRP007412_cerebellum	0.52 RPM	4.26 RPM
SRP007412_heart	0.06 RPM	2.41 RPM
SRP007412_kidney	0.23 RPM	3.64 RPM
SRP007412_liver	0.00 RPM	0.99 RPM
SRP007412_testis	5.92 RPM	76.44 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_69 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_69 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_69 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	ENSMMUG00000020125	1 retrocopy	retro_mmul_69 ,