RetrogeneDB ID: retro_rnor_349

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 1:237258017..237258932(-)
• Located in intron of: ENSRNOG00000050832

Retrocopy information

• Ensembl ID: ENSRNOG00000013077
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Olfr1467
• Ensembl ID: ENSRNOG00000050832
• Aliases: None
• Description: olfactory receptor 1467 [Source:MGI Symbol;Acc:MGI:3031301]

Sequence

>retro_rnor_349
ATGGAGAACAGAACATGGTTCATCCTGGCAGGACTCACTGATAACCAACGACTGCAGCTTCCCCTCCTCATCACCTTCTT
CCTCATCTATACCATCACCTTTGTAGGAAACCTGGGTTTGATCCTGTTGATTCTTTTGGATTCTCGGCTCCACAGCCCCA
TGTACATTTTTCTAAGTAACCTATCCTTAGTTGACTTCTGTTACTCTTCAACAGTAACTCCAAAGGTCATAGCTGGAATC
CTTACAGGAGACAAGATCATGTCCTACAATGCTTGTGCATCTCAGATGTTCTTTTTTGCAAACTTTGCCAACGTTGAAAA
CTACCTTTTAGTCTCAATGGCCTATGATCGTTATGCAGCAGTGTGTAAGCCCCTACATTATACCACCACCATGACAACAC
GTGTTTGTGTTTCTCTAGTCATTGGCTGTTATATCTGTGGATTTCTGAATGCTTCCATCTATACTATGGATGCATTAAGT
CTTTCCTTCTGTGAATCCAATGTGGTCCATCATTTCTTCTGTGATGTTCTGGCAGTCATGATTATATCTTGCTCTGATAG
ACATGTTAATGAACTGATTCTTGTTTATGTAGCCAGCTTCAATATATTTTTTGCTCTTATACTCATCTTATTATCCTACA
TGTTCATTTTTACCAACATACTAAAGATGCATTCAGCTGCAGGATATTGCAAAGCTCTCTCCACTTGTGCTTCACACTTA
ACAGCTGTCTCCATTTTCTATGGGACAATCATATTTATGTACTTGCAGCCCAGCTCCAGGCACTCCATGGACACTGACAA
AATCGCATCTGTGTTCTACACCATGGTCATCCCGATGTTGAACCCTCTGGTTTACAGCCTGAGAAATAAGGATGTGAAGA
ATGCCTTCACAAAGATTGTCTTAAGGTCAAGATGA

Alignment

ORF - retro_rnor_349 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.06 %
• Parental protein coverage: 99.01 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MENRTWFILLGLTDDPKLQLPLFITFFLIYIITLMGNLGMILLILLDSRLHTPMYIFLSNLSLVDFCYSS
          MENRTWFIL.GLTD...LQLPL.ITFFLIY.IT..GNLG.ILLILLDSRLH.PMYIFLSNLSLVDFCYSS
Retrocopy MENRTWFILAGLTDNQRLQLPLLITFFLIYTITFVGNLGLILLILLDSRLHSPMYIFLSNLSLVDFCYSS

Parental  TVTPKVMAGFLTGDKIMSYNACASQIFFFATFANVESYLLVSMAYDRYAAVCKPLHYATTMTTRVCVCLI
          TVTPKV.AG.LTGDKIMSYNACASQ.FFFA.FANVE.YLLVSMAYDRYAAVCKPLHY.TTMTTRVCV.L.
Retrocopy TVTPKVIAGILTGDKIMSYNACASQMFFFANFANVENYLLVSMAYDRYAAVCKPLHYTTTMTTRVCVSLV

Parental  IGSYVTGFLNASIHIGDTFQLYFCESNVVHHFFCDIPAVMVLSCSDRHASELVLVYIVSFHIFFAFIVIW
          IG.Y..GFLNASI...D...L.FCESNVVHHFFCD..AVM..SCSDRH..EL.LVY..SF.IFFA.I.I.
Retrocopy IGCYICGFLNASIYTMDALSLSFCESNVVHHFFCDVLAVMIISCSDRHVNELILVYVASFNIFFALILIL

Parental  ISYMFIFVTILKMPSAEGHHKAISTCASHFTAVSIFYGTSIFMYVQPSSSHSMDTDKIASVFYTMVIPML
          .SYMFIF..ILKM.SA.G..KA.STCASH.TAVSIFYGT.IFMY.QPSS.HSMDTDKIASVFYTMVIPML
Retrocopy LSYMFIFTNILKMHSAAGYCKALSTCASHLTAVSIFYGTIIFMYLQPSSRHSMDTDKIASVFYTMVIPML

Parental  NPLVYSLRNKEVKSAFKKIIL
          NPLVYSLRNK.VK.AF.KI.L
Retrocopy NPLVYSLRNKDVKNAFTKIVL

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_349 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_349 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_349 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 ,