RetrogeneDB ID: retro_btau_946

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 21:8161198..8161528(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COPR5
• Ensembl ID: ENSBTAG00000001885
• Aliases: COPRS, C19H17orf79, COPR5
• Description: Cooperator of PRMT5 [Source:UniProtKB/Swiss-Prot;Acc:A5PJD3]

Sequence

>retro_btau_946
CCAGGCCCTGGCTTTGCCCAGCTGAGCACTCTGGTCAGGAGAGAAACTGAGAAGGCCAGGGATCTGCGAGCTTGGGAGCA
CAGAGCACCTCTCCTGACGGTCTCGCCCATGGTGAAGGCGCCCGTTCTGAAGAGGGGCCGTGCCTTGGGTGATGGGGATT
CTGCTGGGGAACAAAACGTCTGGGAGCTGTCAGAAGGGGTGTCCAGCCGTCCACCCAAGGCTTCTGGTCTTCTCAGTGAG
GACTGAGACCCAGGACTGAAGGCAGGCCACAGGAACCCAGAGGATGCTGAAGACATCCAGAGCTGCCTTTCTGCAGGGGT
CAGACCTTGG

Alignment

ORF - retro_btau_946 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.86 %
• Parental protein coverage: 61.62 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PGTAFAPADHSSQEKATENATDRLA-NGAQSIPHDSPAHGEGTHCEEEG-FAEDDEDSDGEPSPWELSEG
          PG..FA..........TE.A.D..A..GAQS...D..AHGEG....EEG..A..D.DS.GE...WELSEG
Retrocopy PGPGFAQLS-TLVRRETEKARDLRA<LGAQSTSPDGLAHGEGAR-SEEG>RALGDGDSAGEQNVWELSEG

Parental  MSGCLPKEQAGDLFHEDWDLELKADQGNPYDADDIQGCLSQEVRPW
          .S...PK..A..L..ED.D..LKA...NP.DA.DIQ.CLS..VRPW
Retrocopy VSSRPPK--ASGLLSED*DPGLKAGHRNPEDAEDIQSCLSAGVRPW

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	0.65 RPM
ERP005899_muscle	0.00 RPM	2.43 RPM
SRP017611_brain	0.00 RPM	14.11 RPM
SRP017611_kidney	0.00 RPM	6.05 RPM
SRP017611_liver	0.00 RPM	0.98 RPM
SRP030211_testis	0.03 RPM	48.27 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_946 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_946 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_946 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001885	1 retrocopy	retro_btau_946 ,
Callithrix jacchus	ENSCJAG00000014110	1 retrocopy	retro_cjac_2739,
Myotis lucifugus	ENSMLUG00000016418	1 retrocopy	retro_mluc_1801,
Pongo abelii	ENSPPYG00000008153	1 retrocopy	retro_pabe_2109,
Rattus norvegicus	ENSRNOG00000000111	1 retrocopy	retro_rnor_2923,
Tupaia belangeri	ENSTBEG00000008542	1 retrocopy	retro_tbel_1528,
Tursiops truncatus	ENSTTRG00000009909	1 retrocopy	retro_ttru_225,