RetrogeneDB ID: retro_rnor_343

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 3:85600913..85601840(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSRNOG00000006771
• Aliases: Olr729, ratchr3-74342019-74341093_ORF
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSRNOG00000006819
• Aliases: None
• Description: None

Sequence

>retro_rnor_343
ATGGAAATACCACACAATATTACAGAATTTTTCATGTTGGGACTTTCCCAGAGGCCAGAGATCCAGAGGATTCTCTTTGT
GGTCTTCTTGGTTATCTATGCAGTTACAGTTTTCGGCAACATGTTAATTGTGGTCACCATCACCTTTAGCTCCAGCCTGG
CATCCCCTATGTATTTCTTCCTTTCCAATCTATCTTTTATTGACACCTGCTATTCTTCTTCTTTGGCCCCTAAACTCATT
GCTGATTCCTTGTATGAGGGGACAACTCTTTCTTATGAGGGTTGCATGGCCCAACTCTTTGGAGCTCATTTCCTGGGAGG
TGTTGAGATCATTCTACTCACAGTGATGGCCTATGACCGTTATGTAGCCATCTGCAAGCCTCTGCATTATACCACCAAGA
TGACCAGGCACCTTTGTGTTGTGCTGGTGGGGGTGGCTTGGCTGGGTGGCTTCCTACATTCATTGGTACAGATCCTTCTG
ATTTTTCAGCTGCCTTTCTGTGGTCCTAATGTAATCAATCACTTTGTGTGTGACTTGTATCCTTTACTGGAGCTGGCCTG
CACCGACACATATGTCATTGGCCTGCTGGTGGTGGCCAACAGTGGTGTGATTTGCCTGCTGAACTTCCTCATGCTGGGTA
CCTCCTACATTGTCATCCTGCACTCCTTGCGTTACCACAGTGTAGAGGGGAGACGGAAAGCTCTGTCTACCTGTGGGGCT
CACTTCACTGTTGTTGCTTTGTTCTTTGTGCCCTGTATATTTAGTTATATGCGTCCATCAACTACTTTATCTATAGACAA
AAACATGGCAGTATTTTATGGTATTCTGACACCCATGTTGAATCCACTCATTTATACTCTGAGAAATGAAGAGGTGAAAG
ATGCCATGAGAAAACTCTTCACACGCATGGAAGCTACAGGTACCTGA

Alignment

ORF - retro_rnor_343 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.13 %
• Parental protein coverage: 98.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NNVTELIFTGLFQDPEVQKVCFVLFLPVYVATLLGNGLIIVAVSTSKTLHSPMYFFLNSLSLVEIFYSST
          .N.TE....GL.Q.PE.Q...FV.FL..Y..T..GN.LI.V....S..L.SPMYFFL..LS.....YSS.
Retrocopy HNITEFFMLGLSQRPEIQRILFVVFLVIYAVTVFGNMLIVVTITFSSSLASPMYFFLSNLSFIDTCYSSS

Parental  IVPKFITDLLAKIKTISLKGCLTQIFFSHFFGGIEIFLLTVMAYDRYVAICKPLHYTSIMNQRLCC-LVA
          ..PK.I.D.L....T.S..GC..Q.F..HF.GG.EI.LLTVMAYDRYVAICKPLHYT..M...LC..LV.
Retrocopy LAPKLIADSLYEGTTLSYEGCMAQLFGAHFLGGVEIILLTVMAYDRYVAICKPLHYTTKMTRHLCVVLVG

Parental  VAWLGGFLHSSAQLFLVLQLPFCGPNVINHFVCDLYPLLELACTDTYVIGLLVVANSGVICLLNFLMLAA
          VAWLGGFLHS..Q..L..QLPFCGPNVINHFVCDLYPLLELACTDTYVIGLLVVANSGVICLLNFLML..
Retrocopy VAWLGGFLHSLVQILLIFQLPFCGPNVINHFVCDLYPLLELACTDTYVIGLLVVANSGVICLLNFLMLGT

Parental  SYIVILRTLRSHSAEGRRKALSTCGAHFTVVALFFVPCIFIYMRPSSTLSIDKIVAVFYCILTPMFNPLI
          SYIVIL..LR.HS.EGRRKALSTCGAHFTVVALFFVPCIF.YMRPS.TLSIDK..AVFY.ILTPM.NPLI
Retrocopy SYIVILHSLRYHSVEGRRKALSTCGAHFTVVALFFVPCIFSYMRPSTTLSIDKNMAVFYGILTPMLNPLI

Parental  YTLRNAEVKNAMKNLWRK
          YTLRN.EVK.AM..L...
Retrocopy YTLRNEEVKDAMRKLFTR

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_343 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_343 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_343 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Rattus norvegicus	ENSRNOG00000006819	3 retrocopies	retro_rnor_328, retro_rnor_343 , retro_rnor_344,
Rattus norvegicus	ENSRNOG00000046433	1 retrocopy	retro_rnor_1896,
Rattus norvegicus	ENSRNOG00000046674	1 retrocopy	retro_rnor_215,
Rattus norvegicus	ENSRNOG00000050195	1 retrocopy	retro_rnor_72,