RetrogeneDB ID: retro_rnor_2497

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 7:6618706..6619618(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Olfr798
• Ensembl ID: ENSRNOG00000043382
• Aliases: None
• Description: olfactory receptor 798 [Source:MGI Symbol;Acc:MGI:3030632]

Sequence

>retro_rnor_2497
GTGAGTGAGTTTATTCTTCTGGAATTAAAAAATGACCCAAAGCTAATAATTTTGATTTTTTGTAATTTTATTTCTCACTT
ATATTTTGAGCATTACTGGAAATCTGACAATGATTACCCTCACTCTGATAGATTCATACCTCAAGATGCCCATGTACTTC
TTCATCACAAATTTCTCTTTCCTAGAAATCACATTTACAACAGGTTCCATTTCTAAGATCCTTGTGAGCATTGTAACCGG
GGATATGACCATCTCCTACAACTTATGCATGACTCAGGTGTTCTTCTTTATACTCCTGGGTTCATCTGATCGTTTCCTTT
TGACTACTATGTCCTGTGACCAATATGTGGCTATCTGTAAGCCCTTGAATTACACCAAAATAATGAACAGCAGGGTCTGC
ATCCAGCTCAGAGTTAGCTTTTGTCTGGCTAAATTTCTCATAATCTTTCCACCCGCGATTATGGGCCTTCAACTGGACTT
ATGTGACTCCAACATCAATGACCATTTCACCTGTGACTCCTCCCCCATGCTTCTCATCTCTTGCACAGATACAGCCTTTC
TGGAAATCTTGGCATTTCTCCTGGCAGAATCTACCCTCATGGTAACTTTCTCATTAATGATTCTGTCCTATATGTTCATC
CTTAGGACAAGTCTAAGAATCCCCTCTGCTGAACAAAGAAAAAAGGCCTTTTCTACCTGTTCCTCACACATGATTATTGT
GTCCATTTCCTATGAAGCTGTATATTCATACATGTCAAAACTTCAGCAAAGGAAGGCATCGTTTTGAATAAGGGTATAGC
AGTGGTCAACACCTCTGTTGCCCTATGCTGAATCCTTTTATTTACTCCATTAGAAACAACCAAGTAAAAGAATTCTTTAA
ACCTTGATCAAAAATGCAATTCAAATAATAAT

Alignment

ORF - retro_rnor_2497 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.06 %
• Parental protein coverage: 98.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  VSEFILLGLTNDPKLNILIF-IFLFLTYILSITGNLTIITLTLIDSHLKTPMYFFLRNFSFLEIALTV-S
          VSEFILL.L.NDPKL.ILIF...LFLTYILSITGNLT.ITLTLIDS.LK.PMYFF..NFSFLEI..T..S
Retrocopy VSEFILLELKNDPKLIILIF>VILFLTYILSITGNLTMITLTLIDSYLKMPMYFFITNFSFLEITFTTGS

Parental  IPRFLVSIVTGDMTISFNSCMAQVFFFILLGSTEFFLLTAMSYDRYVAICKPLHYATIMNSRVCIQLIVD
          I...LVSIVTGDMTIS.N.CM.QVFFFILLGS...FLLT.MS.D.YVAICKPL.Y..IMNSRVCIQL.V.
Retrocopy ISKILVSIVTGDMTISYNLCMTQVFFFILLGSSDRFLLTTMSCDQYVAICKPLNYTKIMNSRVCIQLRVS

Parental  SWLAGFLIIFPPVLMGLQLDFCDSNIIDHFTCDSSPMLLLFCTDIAFLELLAFFLAVFTLMVTFSLVVLS
          ..LA.FLIIFPP..MGLQLD.CDSNI.DHFTCDSSPMLL..CTD.AFLE.LAF.LA..TLMVTFSL..LS
Retrocopy FCLAKFLIIFPPAIMGLQLDLCDSNINDHFTCDSSPMLLISCTDTAFLEILAFLLAESTLMVTFSLMILS

Parental  YMFILRKILRIPSAEQRKKAFSTCSSHMIVVSISYG-GCIFMYVKTSAKEGVALTKGIAVLNTSVA-PML
          YMFILR..LRIPSAEQRKKAFSTCSSHMI.VSISY...CIF..VKTSAKEG..L.KGIAV.NTSVA.PML
Retrocopy YMFILRTSLRIPSAEQRKKAFSTCSSHMIIVSISYE<SCIFIHVKTSAKEGIVLNKGIAVVNTSVA<PML

Parental  NPFIYSLRNKQVKESFK-TLVK-KCISNNN
          NPFIYS.RN.QVKE.FK.TL.K.KC.SNNN
Retrocopy NPFIYSIRNNQVKEFFK<TLIK<KCNSNNN

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_2497 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_2497 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_2497 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Rattus norvegicus	ENSRNOG00000043382	3 retrocopies	retro_rnor_1044, retro_rnor_2416, retro_rnor_2497 ,
Rattus norvegicus	ENSRNOG00000045823	1 retrocopy	retro_rnor_143,