RetrogeneDB ID: retro_btau_1697

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 9:17131747..17132033(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: N4BP2L1
• Ensembl ID: ENSBTAG00000000993
• Aliases: None
• Description: NEDD4-binding protein 2-like 1 [Source:UniProtKB/Swiss-Prot;Acc:Q29S05]

Sequence

>retro_btau_1697
CCTCTCCTGCCAACCCCCACCCGTAGGGCACCTCGGGCCACCACAGCTTTCAGAAACATCCTTACCTCCTCCTACCTCCT
CCTCATGGCTCTGGGAAAACTGCACTGGCTAGACAATTGCAGCAGGACTTTTCCAGGGCTCTGATCTTTGGCACAGATTT
TCTTTTTCCAGGGAAGATAATGTCTTTGAGTTCAATCCTGACTTCCTGGACGAAGCTCATGAATGGAACCAGAACAGAGC
AAGAAAAGCAATGAGGAATAGCATATCCCACATTATTACTGATGAT

Alignment

ORF - retro_btau_1697 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.33 %
• Parental protein coverage: 54.91 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PPAPPPLRGTPPR-RHSFRKHLYLLRGLP-GSGKTTLARQLQHDFPRALIFSTDDFF-FREDGAYEFNPD
          P..P.P.R..P....HSF.KH.YLL...P.GSGKT.LARQLQ.DF.RALIF.TD..F..RED...EFNPD
Retrocopy PLLPTPTRRAPRA<HHSFQKHPYLLLPPPHGSGKTALARQLQQDFSRALIFGTDFLF<SREDNVFEFNPD

Parental  FLEEAHEWNQKRARKAMRNGISPIIIDN
          FL.EAHEWNQ.RARKAMRN.IS.II.D.
Retrocopy FLDEAHEWNQNRARKAMRNSISHIITDD

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	82.48 RPM
ERP005899_muscle	0.00 RPM	17.10 RPM
SRP017611_brain	0.00 RPM	49.93 RPM
SRP017611_kidney	0.00 RPM	21.99 RPM
SRP017611_liver	0.00 RPM	12.61 RPM
SRP030211_testis	0.00 RPM	12.17 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_1697 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_1697 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_1697 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
Bos taurus	ENSBTAG00000000993	1 retrocopy	retro_btau_1697 ,
Macropus eugenii	ENSMEUG00000016698	1 retrocopy	retro_meug_1246,