RetrogeneDB ID: retro_rnor_2381

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 6:98274987..98275239(-)
• Located in intron of: ENSRNOG00000000618

Retrocopy information

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

Parental gene information

• Parental gene symbol: Timm8a1
• Ensembl ID: ENSRNOG00000011226
• Aliases: None
• Description: None

Sequence

>retro_rnor_2381
TTGCTCTCCGTGGACCCCTAGCTGCAGCATTTCATGGAGATGGAGATGCAGAAGCAGAGGCTTCCAGCAGCTGGTGCACC
TGGTGACAGACTTTGCCTGGAGAAGTGCAGGGATAAGCCTGGGCCTAAGTTGGACAGTCGAACTGAGGCTTCTTTGGTGA
GCTGCCTTGAACGCTTCATTGATACAAACCACTTCATCTTAAGTCGACTGGAGCAGACCCAGAAGTGCAAACCTGTCTTC
TCAGAAAGTCTT

Alignment

ORF - retro_rnor_2381 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.6 %
• Parental protein coverage: 86.6 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LAAVDPQLQHFIEVETQKQR-FQQLVHQMTELCWETVG-DRSGPKLDSRAEACFVNCVERFIDTSQFILN
          L..VDP.LQHF.E.E.QKQR.FQQLVH..T...W...G.D..GPKLDSR.EA..V.C.ERFIDT..FIL.
Retrocopy LLSVDP*LQHFMEMEMQKQR>FQQLVHLVTDFAWRSAG<DKPGPKLDSRTEASLVSCLERFIDTNHFILS

Parental  RLEQTQKSKPVFSESL
          RLEQTQK.KPVFSESL
Retrocopy RLEQTQKCKPVFSESL

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	3.74 RPM
SRP017611_kidney	0.00 RPM	7.40 RPM
SRP017611_liver	0.00 RPM	5.38 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_2381 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_2381 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_2381 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	ENSRNOG00000011226	2 retrocopies	retro_rnor_2381 , retro_rnor_293,