RetrogeneDB ID: retro_mmul_1738

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 3:181533887..181534819(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MMU.18991
• Ensembl ID: ENSMMUG00000000531
• Aliases: None
• Description: olfactory receptor 2A2 [Source:RefSeq peptide;Acc:NP_001180907]

Sequence

>retro_mmul_1738
ATAGAATGCCACTAATCATGGGTCACAGAATTCATCCTGGTGGGATTCCAGCTCAGTGCAGACATGGAAATGCTCCTCTT
TTGGATCTTCTCCCTGTTATGCATCTTCAGCCTGCCGGGGAATGGCATGATCTTGGGACTCATCTGTCTGGACCACAGTC
TGCACACCCCCATGTACTTCTTCCTCTAACACCTGGCCATCACAGACATGTCCTATGCTTCCAACAGTGTTCCCAAGATG
TTAGTGGATCTTGCGAACCACAAAAGCACCATCTCCTTTGTGCCATACATAATGCAGACATTCTTGTATTTGGCTTTTGC
AAACACAGAATGTCTGATTTTGGTGGTGATGTCCTATGATCGCTATGTAGCCATCTCCTGCTCCCTACGTTACAATGTCC
TCATGAGCTGAAGATTGTGCACTGTCCTGGCTGTGGCATCCTGGGAACTCAGCTTCCTCCTGGCTCTGGTCCATTCATTT
AGTTCTCATTCTGAGGCTGCCCTTCTGTGGGCTCATGAAATCAACCATTTCTTCTGTGAAATCCTGTCTGTCCTCAAGTT
GGCCTGTGCTGACACCTGGCTCAACCAGGTGGTCATATTTTCTGCTTCCGTGTTCATCCTGGTGGGGCCGCTCTGCCTGG
TGCTGATCTCTTACCTGAGCATCCTGGCAGCCATGCTGAGGATCTAGTCTGGGGAGGGCCGCAGAAGGGTCTTCTCCATC
TGCTCCTCTCACCTCTGCGTGTGGGGCTCTTCTTTGGCAGTGCCATTGTCATGTACATGGCCCCCAAGTCCCGCCATACT
GAGGAGCAGCAGAAGGTCCTTTCCCTGTTTCATAGCCTTTTCAATCAGATGCCGAACCCTCTAATCCACAGCTTGAAGAA
TGCAGAGGTCAAGAGCATCCTGAGGAGGACACTGAGGAAGGAGAGACTAATG

Alignment

ORF - retro_mmul_1738 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.74 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MESNRTWITEVVLLGFQVDPALELFLFGFFLLFYSFTLMGNGIILGLICLDSRLHTPMYVFLSHLAIVDM
          .E....W.TE..L.GFQ.....E..LF..F.L...F.L.GNG.ILGLICLD..LHTPMY.FL.HLAI.DM
Retrocopy IECH*SWVTEFILVGFQLSADMEMLLFWIFSLLCIFSLPGNGMILGLICLDHSLHTPMYFFL*HLAITDM

Parental  SYASSTVPKMLANLVMHKKVISFAPCILQTFLYLAFAITECLILVVMSYDRYVAICHPLQYTVIMSWRVC
          SYAS..VPKML..L..HK..ISF.P.I.QTFLYLAFA.TECLILVVMSYDRYVAI...L.Y.V.MS.R.C
Retrocopy SYASNSVPKMLVDLANHKSTISFVPYIMQTFLYLAFANTECLILVVMSYDRYVAISCSLRYNVLMS*RLC

Parental  TILALTSWSCGFALSLVHA-ILLL-RLPFCG-PQDVNHLFCEILSVLKLACADTWVNQVFIFATCVFVLV
          T.LA..SW...F.L.LVH....L..RLPFCG.....NH.FCEILSVLKLACADTW.NQV.IF...VF.LV
Retrocopy TVLAVASWELSFLLALVHS>LVLILRLPFCG<AHEINHFFCEILSVLKLACADTWLNQVVIFSASVFILV

Parental  GPLSLILVSYTHIVGAILKIQTKEGRIKALSTCSSHLCV-VGLFFGIAMVVYMVPDSNQREEQEKMLSLF
          GPL.L.L.SY..I..A.L.I...EGR....S.CSSHLCV.VGLFFG.A.V.YM.P.S...EEQ.K.LSLF
Retrocopy GPLCLVLISYLSILAAMLRI*SGEGRRRVFSICSSHLCV<VGLFFGSAIVMYMAPKSRHTEEQQKVLSLF

Parental  HSLFNPMLNPLIYSLRNAQVKGALHRALQRKRPM
          HSLFN.M.NPLI.SL.NA.VK..L.R.L...R.M
Retrocopy HSLFNQMPNPLIHSLKNAEVKSILRRTLRKERLM

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	0.11 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	0.00 RPM
SRP007412_cerebellum	0.19 RPM	0.00 RPM
SRP007412_heart	0.18 RPM	0.06 RPM
SRP007412_kidney	0.23 RPM	0.12 RPM
SRP007412_liver	0.12 RPM	0.00 RPM
SRP007412_testis	0.04 RPM	0.00 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1738 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1738 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1738 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000000531	3 retrocopies	retro_mmul_109, retro_mmul_1652, retro_mmul_1738 ,