RetrogeneDB ID: retro_btau_511

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 13:37290752..37291048(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: APRT
• Ensembl ID: ENSBTAG00000000639
• Aliases: None
• Description: Adenine phosphoribosyltransferase [Source:UniProtKB/Swiss-Prot;Acc:Q56JW4]

Sequence

>retro_btau_511
GTCTTGTTCAGGGACATCTCGCCAGTCCTGAAGGACCCCAACTCTTTCCGAGCCTCCATCAGCCTCCTGGTGAATCACCT
GAAAAAGACCCACAGTGGCAGGATCGACTACACCGCCGGGCCTAGACTCCCGCGATTTCCTTGTTTGGTCTGTCCCTGGC
CCAGGAGCTGGGCTCGGACTACGTTCTCATCCGAAAGCAAGGGAAGCTGCCGCCCACCACCGTGCATGCATCATATGCGC
TGGAATACTGGAAGGCTGAACTGGAAATCCAGAGACATGCCCTGGGACCAGCTGAA

Alignment

ORF - retro_btau_511 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76. %
• Parental protein coverage: 54.44 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VLFRDISPVLKDPTSFRASINLLANHLKKAHGGRIDYIA-GLDSRGF-LFGPSLAQELGLGCILIRKRGK
          VLFRDISPVLKDP.SFRASI.LL.NHLKK.H.GRIDY.A.GLDSR.F.LFG.SLAQELG....LIRK.GK
Retrocopy VLFRDISPVLKDPNSFRASISLLVNHLKKTHSGRIDYTA>GLDSRDF>LFGLSLAQELGSDYVLIRKQGK

Parental  LPGPTVCASYALEYGKGELEIQRDALEPGQ
          LP..TV.ASYALEY.K.ELEIQR.AL.P..
Retrocopy LPPTTVHASYALEYWKAELEIQRHALGPAE

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	17.74 RPM
ERP005899_muscle	0.00 RPM	86.52 RPM
SRP017611_brain	0.05 RPM	26.04 RPM
SRP017611_kidney	0.00 RPM	40.90 RPM
SRP017611_liver	0.00 RPM	48.55 RPM
SRP030211_testis	0.04 RPM	17.27 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_511 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_511 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_511 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000000639	1 retrocopy	retro_btau_511 ,
Macropus eugenii	ENSMEUG00000010375	1 retrocopy	retro_meug_1277,
Mus musculus	ENSMUSG00000006589	3 retrocopies	retro_mmus_1464, retro_mmus_3143, retro_mmus_440,