RetrogeneDB ID: retro_rnor_2193

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 5:3821583..3821787(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Eny2
• Ensembl ID: ENSRNOG00000004681
• Aliases: None
• Description: enhancer of yellow 2 transcription factor homolog [Source:RefSeq peptide;Acc:NP_001124052]

Sequence

>retro_rnor_2193
GTGGTTAGCAAGGTGAGCAAAGATATGCAGATAAGAGCAGTGATTAACCAAAAACCAATAGAAACTGGAGAAAGAGAATG
CCTCAAAGATTGCTGAGAGCTCAATTAATTGAGTATGGCTGGAAGGATCAGTTGAAGGCACACTGTAAAAGAAATTAAAG
AAAACTGACTGGAACATGTTACTGTTGATGACTTTGTGGCTAAA

Alignment

ORF - retro_rnor_2193 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.65 %
• Parental protein coverage: 68.32 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VVSKMNKDAQMRAAINQKLIETGERERLKE-LLRAKLIECGWKDQLKAHC-KEVIKEKGLEHVTVDDLVA
          VVSK..KD.Q.RA.INQK.IETGERE.LK..LLRA.LIE.GWKDQLKAHC.KE..KE..LEHVTVDD.VA
Retrocopy VVSKVSKDMQIRAVINQKPIETGERECLKD<LLRAQLIEYGWKDQLKAHC>KEI-KEN*LEHVTVDDFVA

Parental  E
          .
Retrocopy K

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	39.61 RPM
SRP017611_kidney	0.00 RPM	35.87 RPM
SRP017611_liver	0.00 RPM	16.34 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_2193 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_2193 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_2193 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003039	1 retrocopy	retro_acar_1,
Bos taurus	ENSBTAG00000007387	1 retrocopy	retro_btau_754,
Dasypus novemcinctus	ENSDNOG00000007377	1 retrocopy	retro_dnov_25,
Echinops telfairi	ENSETEG00000010882	2 retrocopies	retro_etel_1826, retro_etel_450,
Myotis lucifugus	ENSMLUG00000027585	1 retrocopy	retro_mluc_357,
Mustela putorius furo	ENSMPUG00000005873	2 retrocopies	retro_mputfur_1128, retro_mputfur_323,
Mus musculus	ENSMUSG00000022338	3 retrocopies	retro_mmus_1055, retro_mmus_1795, retro_mmus_3511,
Rattus norvegicus	ENSRNOG00000004681	1 retrocopy	retro_rnor_2193 ,
Sarcophilus harrisii	ENSSHAG00000001787	4 retrocopies	retro_shar_454, retro_shar_675, retro_shar_815, retro_shar_816,
Tarsius syrichta	ENSTSYG00000005590	1 retrocopy	retro_tsyr_673,
Tursiops truncatus	ENSTTRG00000001742	3 retrocopies	retro_ttru_46, retro_ttru_845, retro_ttru_997,