RetrogeneDB ID: retro_mmul_536

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1:137356973..137357896(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000018448
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: OR6K3
• Ensembl ID: ENSMMUG00000000734
• Aliases: None
• Description: olfactory receptor, family 6, subfamily K, member 3 [Source:HGNC Symbol;Acc:15030]

Sequence

>retro_mmul_536
ACAATGGTGACTGAGTTTCATTTCTCTGATTTTCCTCAATCTAAGAATGGCAGGCTGTTATTCTTCATTCCTATGCTCTT
TATTTATATATTCATTATTGTTGGAAATTTCATGATTTTCTTTGCTGTCCAACTGGACCCCCGTCTCCATAATCCTATGT
ACAATTTTATCAGTGTCTTCTCCTTCCTGAAGATTTGGTACACCACCGTGACTATCCCCAAGATGCTCTCCAACCTTCTC
AGTGAACAGAAAACCATCTCTTTCATAGGCTGCCTCCTGCAGATGTATTTCTTCCACTCACTCGGGGTCACAGAAGCCCT
AGTCCTCACAGTGATGGCCATTGACAGGTATGTAGCCATCTGCAACCCCCTTCGCTATGCAATCATTATGACCCCTCGAC
TGTGCATCCAGCTCTTCACTAGCTCTTGCATTTTTGGCTTCTTCATGTTATTGCCAGAGATTGTGTGGATTTCTACTCTT
CCATTCTGTGGCTCCAACCAAATTCATCAACTCTTTTGTGACTTTGAACCTGTGCTGCAGTTGGCCTGCACAGATACATC
CATAATTCTGGTTGAAGATGTGATCCATGCTATTTCCATTCTGACTTCTGTCTCTGTCATCACCCTTTCCTATTTAAGAA
TCATCACGGCGATCCTGAGGATTCCCTCTGGTAAGAACCATCAGAAGGCTTTCTCCACGTGTGCAGCCCATGTTGCTATT
TTCTTGCTGTTTTTTGCAGTGTGGCACTCATGTATCTGCGCTTCTCTGTCACGTTCCCACCACTACTGGACAAGGCCATT
GCACTGATGTTTGCTGTCCTTGCCCCACTTTTCAACCCAATAATCTATAGTCTGAGGAACAAAGATATGAAAAACGCCAT
CAAGAAAATCCTCTGTTCTCAAAAGATGTTCGATGCCTCTGGG

Alignment

ORF - retro_mmul_536 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.74 %
• Parental protein coverage: 99.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TTVTEFLFTGFPQFEDGSLLFFIPLFVIYIFIVIGNLTVFFAVMMDTRLHNPMYNFISIFSFLEIWIWYT
          T.VTEF.F..FPQ...G.LLFFIP...IYIFI..GN...FFAV..D.RLHNPMYNFIS.FSFL.IW..YT
Retrocopy TMVTEFHFSDFPQSKNGRLLFFIPMLFIYIFIIVGNFMIFFAVQLDPRLHNPMYNFISVFSFLKIW--YT

Parental  TATIPKMLSNLISEKKAISMMGCFLQMYFFHSLGNSEGILLTTMAIDRYVAICNPLRYQMIMTPRLCTQL
          T.TIPKMLSNL.SE.K.IS..GC.LQMYFFHSLG..E...LT.MAIDRYVAICNPLRY..IMTPRLC.QL
Retrocopy TVTIPKMLSNLLSEQKTISFIGCLLQMYFFHSLGVTEALVLTVMAIDRYVAICNPLRYAIIMTPRLCIQL

Parental  SAGSCIFGFLILLPEIVMISTLPFCGPNQIHQIFCDLVPVLSLACTDTSMILIEDVIHAVTIIITFLIIA
          ...SCIFGF..LLPEIV.ISTLPFCG.NQIHQ.FCD..PVL.LACTDTS.IL.EDVIHA..I......I.
Retrocopy FTSSCIFGFFMLLPEIVWISTLPFCGSNQIHQLFCDFEPVLQLACTDTSIILVEDVIHAISILTSVSVIT

Parental  LSYVRIVTVILRIPSSEGRQKAFSTCAGRLMVFLIFFG-SVSLMYLRFSDTYPPVLDTAIALMFTVLAPF
          LSY.RI.T.ILRIPS....QKAFSTCA.....FL.FF..SV.LMYLRFS.T.PP.LD.AIALMF.VLAP.
Retrocopy LSYLRIITAILRIPSGKNHQKAFSTCAAHVAIFLLFFA<SVALMYLRFSVTFPPLLDKAIALMFAVLAPL

Parental  FNPIIYSLRNKDMNNAIKKLFCFQKVLNKSG
          FNPIIYSLRNKDM.NAIKK..C.QK....SG
Retrocopy FNPIIYSLRNKDMKNAIKKILCSQKMFDASG

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	0.00 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	0.00 RPM
SRP007412_testis	0.00 RPM	0.00 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_536 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_536 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_536 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000025459	1 retrocopy	retro_cfam_163,
Macaca mulatta	ENSMMUG00000000734	2 retrocopies	retro_mmul_536 , retro_mmul_9,