RetrogeneDB ID: retro_rnor_669

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 10:9233443..9234388(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSRNOG00000050179
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSRNOG00000002874
• Aliases: None
• Description: None

Sequence

>retro_rnor_669
ATGGAAGCCGATGAACGAGACAGGAAGAGAGAGAAGGAAGAACTTGAGGAAATCAGGCAACGTTTACTGGCAGAGGGGCA
TCCAGATCCAGATGCAGAGCTCCAGAGGATGGAACAAGAGGCTGAGAGGCGCAGGCAACCTCAAATAAAGCAAGAGCCAG
AGTCAGAGGAAGAAGAAGAAGAAAAGCAAGAAAAAGAAGAAAAACGAGAGGAGCCTGTGGAAGAGGAAGAAGAACCAGAG
CAAAAGCCTTGTCTCAAACCCACCTTGAGACCCATCAGCTCCGCTCCATCTGTGTCCTCTGCCAGCAGCAATGCAACACC
TAACACTCCCGGGGACGAGTCTCCTTGTGGTATTATTATTCCTCATGAAAACTCACCAGATCAACAGCAGCCTGAGGAAC
ATAGGCCAAAAATAGGACTAAGTCTTAAATTGGGTGCTTCCAATAGTCCTGGCCAACCTAATTCAGTGAAGAGAAAGAAA
CTACCTGTAGATAGTGTCTTTAACAAATTTGAGGATGAAGACAGTGATGATGTGCCCCGAAAAAGGAAACTGGTTCCCCT
GGATTATGGCGAAGATGATAAAAATGCCGCCAAAGGCACTGTAAACACTGAAGAAAAGCGCAAACACATTAAGAGTCTCA
TTGAGAAAATTCCCACAGCCAAGCCTGAGCTCTTTGCTTATCCTTTGGATTGGTCTATTGTGGATTCTATACTGATGGAA
CGCAGAATCCGGCCATGGATCAATAAGAAAATCATAGAATACATAGGTGAAGAAGAAGCTACTTTAGTTGATTTTGTTTG
TTCTAAGGTTATGGCACATAGTTCACCACAGAGCATTTTAGATGATGTTGCCATGGTACTAGATGAAGAAGCAGAAGTTT
TTATAGTCAAAATGTGGAGATTATTGATATATGAAACAGAAGCCAAGAAAATTGGTCTTGTGAAG

Alignment

ORF - retro_rnor_669 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.87 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEADERDRKREKEELEEIRQRLLAEGHPDPDAELQRMEQEAERRRQPQIKQEPESEEEEEEKQEKEEKRE
          MEADERDRKREKEELEEIRQRLLAEGHPDPDAELQRMEQEAERRRQPQIKQEPESE............RE
Retrocopy MEADERDRKREKEELEEIRQRLLAEGHPDPDAELQRMEQEAERRRQPQIKQEPESEXXXXXXXXXXXXRE

Parental  EPVEEEEEPEQKPCLKPTLRPISSAPSVSSASGNATPNTPGDESPCGIIIPHENSPDQQQPEEHRPKIGL
          EPVEEEEEPEQKPCLKPTLRPISSAPSVSSAS.NATPNTPGDESPCGIIIPHENSPDQQQPEEHRPKIGL
Retrocopy EPVEEEEEPEQKPCLKPTLRPISSAPSVSSASSNATPNTPGDESPCGIIIPHENSPDQQQPEEHRPKIGL

Parental  SLKLGASNSPGQPNSVKRKKLPVDSVFNKFEDEDSDDVPRKRKLVPLDYGEDDKNAAKGTVNTEEKRKHI
          SLKLGASNSPGQPNSVKRKKLPVDSVFNKFEDEDSDDVPRKRKLVPLDYGEDDKNAAKGTVNTEEKRKHI
Retrocopy SLKLGASNSPGQPNSVKRKKLPVDSVFNKFEDEDSDDVPRKRKLVPLDYGEDDKNAAKGTVNTEEKRKHI

Parental  KSLIEKIPTAKPELFAYPLDWSIVDSILMERRIRPWINKKIIEYIGEEEATLVDFVCSKVMAHSSPQSIL
          KSLIEKIPTAKPELFAYPLDWSIVDSILMERRIRPWINKKIIEYIGEEEATLVDFVCSKVMAHSSPQSIL
Retrocopy KSLIEKIPTAKPELFAYPLDWSIVDSILMERRIRPWINKKIIEYIGEEEATLVDFVCSKVMAHSSPQSIL

Parental  DDVAMVLDEEAEVFIVKMWRLLIYETEAKKIGLVK
          DDVAMVLDEEAEVFIVKMWRLLIYETEAKKIGLVK
Retrocopy DDVAMVLDEEAEVFIVKMWRLLIYETEAKKIGLVK

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	1.01 RPM	26.03 RPM
SRP017611_kidney	0.70 RPM	27.42 RPM
SRP017611_liver	0.34 RPM	14.66 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_669 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_669 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_669 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000015434	1 retrocopy	retro_mluc_196,
Rattus norvegicus	ENSRNOG00000002874	1 retrocopy	retro_rnor_669 ,