RetrogeneDB ID: retro_btau_754

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 19:11763462..11763687(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENY2
• Ensembl ID: ENSBTAG00000007387
• Aliases: None
• Description: Enhancer of yellow 2 transcription factor homolog [Source:UniProtKB/Swiss-Prot;Acc:Q3ZBJ0]

Sequence

>retro_btau_754
GAATGCCTCAAAGAGTTGCTAAAAGCCAAGTTAATTGAATGTGGCTGAAAGGACACAGTTGAAGTCACACTGTTAAGAGG
TAACTCAAGAAAAAGGACTACAACACATTACTGTTGATGACTGGGTGGCTCAAATCACACCCAAAGGCAGAACCCAGGTA
CCTGACAGTGTAAAGGAGGAGCTCCTAGGAGAATAAGAACATTCCTTGCTTAGCAACCCAGCCTT

Alignment

ORF - retro_btau_754 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.03 %
• Parental protein coverage: 74.26 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ERLKELLRAKLIECGWKD-QLKAHCKEVIKEKGLEHVTVDDLVAEITPKGRALVPDSVKKELL-QRIRTF
          E.LKELL.AKLIECG.KD.QLK.HC.EV..EKGL.H.TVDD.VA.ITPKGR..VPDSVK.ELL..RIRTF
Retrocopy ECLKELLKAKLIECG*KD>QLKSHC*EVTQEKGLQHITVDDWVAQITPKGRTQVPDSVKEELL<RRIRTF

Parental  LAQHASL
          LA...SL
Retrocopy LA*QPSL

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
ERP005899_liver	0.00 RPM	39.94 RPM
ERP005899_muscle	0.00 RPM	22.22 RPM
SRP017611_brain	0.00 RPM	16.90 RPM
SRP017611_kidney	0.00 RPM	28.63 RPM
SRP017611_liver	0.00 RPM	19.48 RPM
SRP030211_testis	0.00 RPM	18.20 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_754 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_754 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_754 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,