RetrogeneDB ID: retro_rnor_350

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 1:236997763..236998690(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSRNOG00000046004
• Aliases: Olr346, ratchr1-216257071-216257997_ORF
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Olr363
• Ensembl ID: ENSRNOG00000048006
• Aliases: None
• Description: olfactory receptor Olr363 [Source:RefSeq peptide;Acc:NP_001000754]

Sequence

>retro_rnor_350
ATGGAGAATTGTACCAAAGTGAGAGAGTTCATTCTCCTGGGACTAACTGATGACCCAGGCTTGCAGGTTCCCCTTTTCAT
CATGTTCACCATCATTTACCTCATTGATGTGGTTGGAAACATGGGGATGATAATGTTGGTTCTCATGGACTCTCATTTGC
ACACGCCCATGTACTTTTTCCTTTGTAACCTGTCTCTTATAGACTTGGGTTACTCCTCAGCTGTCACTCCCATGGTGATG
TCTGAATTGCTCATGGTCTCCAAGGTGGTGTCATACAATGCCTGTGCTGCACAGATGTTCTTCTTTGTAGGCTTCGCCAC
TGGGGAAAATTACCTCTTAGCATCAATGGCCTATGACCGCTATGTAGCAGTATGCAAACCCCTGCATTATTCCACCAGGA
TGACAACAAGTGTTTGTATTTGTTTGAACATTGGCTCTTATATCTGTGGTTTCTTGAATGCCATTTTTCATGTTGGAGAC
ATATTCAGCCTTTCTTTTTGTAAATTTAATATAGTCCATCATTTTTTCTGTGATGTTCCAGCAGTTCTGGCTCTATCTTG
CTCTGATATACACCTCAGTGAAATGATTCTTGTTTTTTTGTCAACATTCAATGTCTTCTTTGCTCTTCTGATCATCTTAG
TTTCCTATCTCTTTATATTTATTACCATCTTGAAGATGAAATCAGACAAGGGACACCAAAAAGCTTTGTCCACCTGTACC
TCCCACCTCACTGTAGTTTCCATATTTTATAGCACTGTCATTTTCATGTACTTACAACCCAGTTCCAGTCATTCCATGGA
TGCAGATAAAGTAGCATCTATGTTCTACACTATGATCATCCCCGCACTAAACCCTTTGGTCTATAGCCTGAGGAATAAGG
AAGTGAACAATGCATTCAAGAAAATGGTTAAGAAATCAACTTTATGA

Alignment

ORF - retro_rnor_350 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.43 %
• Parental protein coverage: 97.41 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MENRTEVTEFLLLGLTDDPGLQLPLFMIFLFIYTITLMGNLGMTLLIVLDSRLHTPMYFFLCNLSLVDFC
          MEN.T.V.EF.LLGLTDDPGLQ.PLF..F..IY.I...GN.GM..L...DS.LHTPMYFFLCNLSL.D..
Retrocopy MENCTKVREFILLGLTDDPGLQVPLFIMFTIIYLIDVVGNMGMIMLVLMDSHLHTPMYFFLCNLSLIDLG

Parental  YSSAVTPTVMTGLLIGNKIISYNDCAAQMFFFVAFATVENYLLASMAYDRYAAVCNPLHYATTMTTSVCV
          YSSAVTP.VM..LL...K..SYN.CAAQMFFFV.FAT.ENYLLASMAYDRY.AVC.PLHY.T.MTTSVC.
Retrocopy YSSAVTPMVMSELLMVSKVVSYNACAAQMFFFVGFATGENYLLASMAYDRYVAVCKPLHYSTRMTTSVCI

Parental  CLSLGSYACGFLNASIHIGDTFSLSFCRFHVVHHFFCDIPAVMVLSCSDRHVSELVLIYVVSFNIFFALL
          CL..GSY.CGFLNA..H.GD.FSLSFC.F..VHHFFCD.PAV..LSCSD.H.SE..L.....FN.FFALL
Retrocopy CLNIGSYICGFLNAIFHVGDIFSLSFCKFNIVHHFFCDVPAVLALSCSDIHLSEMILVFLSTFNVFFALL

Parental  VIWISYIFIFITIFKMKSSSGYRKAVSTCASHFIAVSIFYGTIIFMYLQPSSSHSMDNDKIASVFYTMII
          .I..SY.FIFITI.KMKS..G..KA.STC.SH...VSIFY.T.IFMYLQPSSSHSMD.DK.AS.FYTMII
Retrocopy IILVSYLFIFITILKMKSDKGHQKALSTCTSHLTVVSIFYSTVIFMYLQPSSSHSMDADKVASMFYTMII

Parental  PMLNPLIYSMRNKEVKNAFTK
          P.LNPL.YS.RNKEV.NAF.K
Retrocopy PALNPLVYSLRNKEVNNAFKK

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
SRP017611_brain	0.00 RPM	0.00 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_350 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_350 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_350 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Rattus norvegicus	ENSRNOG00000045982	2 retrocopies	retro_rnor_180, retro_rnor_94,
Rattus norvegicus	ENSRNOG00000048006	2 retrocopies	retro_rnor_199, retro_rnor_350 ,
Rattus norvegicus	ENSRNOG00000050832	2 retrocopies	retro_rnor_200, retro_rnor_349,