RetrogeneDB ID: retro_mmul_186

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 15:77812819..77813872(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000020379
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: PRKACB
• Ensembl ID: ENSMMUG00000003457
• Aliases: None
• Description: cAMP-dependent protein kinase catalytic subunit beta [Source:RefSeq peptide;Acc:NP_001247888]

Sequence

>retro_mmul_186
ATGGGCAACGCCGCCGCCAAGAAGGACACCGAGCAGGAGACCGTGAACGAGTTCCTAGCCAAAGCCAGAGGAGATTTCCT
CTACAGATGGGGAAACCCCGCTCAAAACACCGCCAGCTCGGATCAGTTTGAACGGCTCAAGACGCTGGGCACCGGCTCCT
ACGGGCGGGTGATGCTGGTGAGGCACCGGGAGACCGGCAACCACTACGCCATGAAGATCCTCGACAAGCAGAAGGTGGTG
AGGCTGAAGCAGGTCGAGCACACACTGAACGAGAAGCGCATCCTGCAGGCGATCAACTTTCCGTTCCTTGTCAAGCTCCA
GTTCTCCTTTAAGGACAACTCCAACCTGTACCTGGTGATGGAGTATGTGCCGGGTGGGGAGATGTTCTCTCACCTACGGC
GCGTCGGAAGGTTCAGCGAGCCCCAGGCCTGTTTCTATGCCGCCCAGGTCGTCCTGGCCTTCCAGTACCTACACTCGCTC
GACCTCATCCACCGCGACCTGAAGCCCGAGAATCTCCTCATCGACCAGCAGGGCTACCTGCAGGTGACGGACTTCGGTTT
CGCCAAGCGCGTGAAGGGCCGCACTTGGACCCTGTGCGGGACCCCAGAGTACCTGGCCCCCGAGATCATCCTGAGCAAAG
GCTACAACAAGGCCGTGGACTGGTGGGCCCTAGGGGTGCTCATCTATGAGATGACCGCGGGCTTCCCGCCCTTCTACGCC
GACCAGCCCATCCAGATCTACGAGAAGATCGTCTCTGGGAAGGTGCGGTTTCCCTCCCAACTCAGCCCTGACCTCAAGGA
CCTGCTGCGGAGCCTGCTGCAGGTGGACCTCACCAAGCGCTTCGGAAACCTCAAGAACGGGGTTGGCGACATCAAGAACC
ACAAGTGGTTTGCCACAACCAACTGGATCGCCCTCTTTGAGAAGAAGGTGGAAGCTCCCTTCATCCCGAAGTACACAGGC
CCTGGGGATGCCAGTAACTTTGACAGCTACGAGGAGGAAGAGATCCGGATCTCCGTCAATGAGAAGTGTGCCAGCAAGTT
TGCTGAGTTTTAG

Alignment

ORF - retro_mmul_186 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.71 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SVKEFLAKAKEDFLKKWENPTQNNAGLEDFERKKTLGTGSFGRVMLVKHKATEQYYAMKILDKQKVVKLK
          .V.EFLAKA..DFL..W.NP.QN.A....FER.KTLGTGS.GRVMLV.H..T...YAMKILDKQKVV.LK
Retrocopy TVNEFLAKARGDFLYRWGNPAQNTASSDQFERLKTLGTGSYGRVMLVRHRETGNHYAMKILDKQKVVRLK

Parental  QIEHTLNEKRILQAVNFPFLVRLEYAFKDNSNLYMVMEYVPGGEMFSHLRRIGRFSEPHARFYAAQIVLT
          Q.EHTLNEKRILQA.NFPFLV.L...FKDNSNLY.VMEYVPGGEMFSHLRR.GRFSEP.A.FYAAQ.VL.
Retrocopy QVEHTLNEKRILQAINFPFLVKLQFSFKDNSNLYLVMEYVPGGEMFSHLRRVGRFSEPQACFYAAQVVLA

Parental  FEYLHSLDLIYRDLKPENLLIDHQGYIQVTDFGFAKRVKGRTWTLCGTPEYLAPEIILSKGYNKAVDWWA
          F.YLHSLDLI.RDLKPENLLID.QGY.QVTDFGFAKRVKGRTWTLCGTPEYLAPEIILSKGYNKAVDWWA
Retrocopy FQYLHSLDLIHRDLKPENLLIDQQGYLQVTDFGFAKRVKGRTWTLCGTPEYLAPEIILSKGYNKAVDWWA

Parental  LGVLIYEMAAGYPPFFADQPIQIYEKIVSGKVRFPSHFSSDLKDLLRNLLQVDLTKRYGNLKNGVSDIKT
          LGVLIYEM.AG.PPF.ADQPIQIYEKIVSGKVRFPS..S.DLKDLLR.LLQVDLTKR.GNLKNGV.DIK.
Retrocopy LGVLIYEMTAGFPPFYADQPIQIYEKIVSGKVRFPSQLSPDLKDLLRSLLQVDLTKRFGNLKNGVGDIKN

Parental  HKWFATTDWIAIYQRKVEAPFIPKFRGSGDTSNFDDYEEEDIRVSITEKCAKEFGEF
          HKWFATT.WIA....KVEAPFIPK..G.GD.SNFD.YEEE.IR.S..EKCA..F.EF
Retrocopy HKWFATTNWIALFEKKVEAPFIPKYTGPGDASNFDSYEEEEIRISVNEKCASKFAEF

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	144.10 RPM
SRP007412_brain_prefrontal_cortex	0.08 RPM	93.85 RPM
SRP007412_cerebellum	0.00 RPM	79.49 RPM
SRP007412_heart	0.00 RPM	6.12 RPM
SRP007412_kidney	0.12 RPM	11.03 RPM
SRP007412_liver	0.12 RPM	2.49 RPM
SRP007412_testis	79.42 RPM	3.39 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_186 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_186 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_186 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_46
Pan troglodytes	retro_ptro_80
Gorilla gorilla	retro_ggor_2856
Pongo abelii	retro_pabe_61

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000003457	1 retrocopy	retro_mmul_186 ,
Nomascus leucogenys	ENSNLEG00000009888	1 retrocopy	retro_nleu_2469,
Pongo abelii	ENSPPYG00000001209	1 retrocopy	retro_pabe_61,
Rattus norvegicus	ENSRNOG00000004978	1 retrocopy	retro_rnor_519,
Tarsius syrichta	ENSTSYG00000000380	2 retrocopies	retro_tsyr_1640, retro_tsyr_1802,