RetrogeneDB ID: retro_rnor_2415

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 7:5878358..5879292(+)
• Located in intron of: ENSRNOG00000047228

Retrocopy information

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

Parental gene information

• Parental gene symbol: Olr952
• Ensembl ID: ENSRNOG00000050176
• Aliases: None
• Description: olfactory receptor Olr1022 [Source:RefSeq peptide;Acc:NP_001001075]

Sequence

>retro_rnor_2415
ATGAAAGACTACACTATAATTACAGAGTTTGTGCTCTTGGTAATATCAGACAACAGAGAGCTTCAGGTAGCAATCTTCAT
CTTTTTATTCATAACTTACACAGTAAGCATCATTGGAAACCTAACCATCATCATCCTCACATTGCTGGACTCTCACTTAA
AGACTCCTATGTATTATTTCCTTCATAATTTCTCCTTTTTAAAAGTTATGTTCACAGTGTTCCATTCCCAGAGTTTGGCA
TCAATAATTAATAAAGGTAAAACCATTTCCTATAATAATTGTTTGGCTCAGTTATTTTTCTTCATCTTCATGGGGGGGGT
GACAGAATTTTTTCTTCTCCAGTTAAAAGTCAAATCACTATGTTGCCATTTGCAAGCCACTTCACTACACCCTCATCATG
AATCAGAAAGCCTGCACCCTTCTTGTCCTCACCTCATGGCTAGCAGAATTCTTGACCATCTTCCCACCACTTATCCTGGT
CCTAAAGTTGGATTTCTGTGCTTCCAATGTCATTGACCATTTCTGCTGTGACTATTTTCCCCTTTTACAACTGTCTTGCT
CAGACACCTGGCTCCTAGAAGTGACTGGTTTCTATGTTGCTCTGGTTACTCTACTGTCCACGATGGCATTGGTGATTTTA
TCTTACATGTGCATTTTCAGGACTATTTTAAGAATTCCATCAGCCAGTCAGAGAAAAAAGGCTTTCTCCACCTGTTCCTT
TCACAAGATTGTCATCTCCATGTCTTAAGGAAGCTGTGTATTTATGTATGTGAAGCCATCAGCAAATGAAAGAGCATCAC
TGACCAAAACAGTGGCTATTTTCAGGACTTCAGTTGCTCCCATGTTGAACCCTTTCATTTATACCTTGAGAAACCAGCAA
GTAAAACAAGTTTTTAAAGAATTGGTTCATAAGGTAGGTTTTTTCCAGGAACAA

Alignment

ORF - retro_rnor_2415 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.97 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MKDYTIITEFVLLVISDNRELQVAIFIFLFITYTVSIIGNLTIIILTLLDSHLKTPMYYFLHNFSFLKVM
          MKDYTIITEFVLLVISDNRELQVAIFIFLFITYTVSIIGNLTIIILTLLDSHLKTPMYYFLHNFSFLKVM
Retrocopy MKDYTIITEFVLLVISDNRELQVAIFIFLFITYTVSIIGNLTIIILTLLDSHLKTPMYYFLHNFSFLKVM

Parental  FTVSIPR-LASIINKGKTISYNNCLAQLFFFIFMGGVTE-FFLLAIMSYDRYVAICKPLHYTLIMNQKAC
          FTV.....LASIINKGKTISYNNCLAQLFFFIF....TE.FF.....S...YVAICKPLHYTLIMNQKAC
Retrocopy FTVFHSQSLASIINKGKTISYNNCLAQLFFFIFXXXXTE>FFFSS*KS-NHYVAICKPLHYTLIMNQKAC

Parental  TLLVLTSWLAEFLTIFPPLILVLKLDFCASNVIDHFCCDYFPLLQLSCSDTWLLEVTGFYVALVTLLSTM
          TLLVLTSWLAEFLTIFPPLILVLKLDFCASNVIDHFCCDYFPLLQLSCSDTWLLEVTGFYVALVTLLSTM
Retrocopy TLLVLTSWLAEFLTIFPPLILVLKLDFCASNVIDHFCCDYFPLLQLSCSDTWLLEVTGFYVALVTLLSTM

Parental  ALVILSYMCIFRTILRIPSASQRKKAFSTCSFHKIVISMS-GSCVFMYVKPSANERASLTKTVAIFRTSV
          ALVILSYMCIFRTILRIPSASQRKKAFSTCSFHKIVISMS.GSCVFMYVKPSANERASLTKTVAIFRTSV
Retrocopy ALVILSYMCIFRTILRIPSASQRKKAFSTCSFHKIVISMS*GSCVFMYVKPSANERASLTKTVAIFRTSV

Parental  APMLNPFIYTLRNQQVKQVFKELVHKVGFFRNK
          APMLNPFIYTLRNQQVKQVFKELVHKVGFF...
Retrocopy APMLNPFIYTLRNQQVKQVFKELVHKVGFFQEQ

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_2415 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_2415 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_2415 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Rattus norvegicus	ENSRNOG00000050176	2 retrocopies	retro_rnor_2415 , retro_rnor_2499,