RetrogeneDB ID: retro_tbel_1528

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_5006:665380..665608(+)
• Located in intron of: ENSTBEG00000008892

Retrocopy information

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

Parental gene information

• Parental gene symbol: COPRS
• Ensembl ID: ENSTBEG00000008542
• Aliases: None
• Description: coordinator of PRMT5, differentiation stimulator [Source:HGNC Symbol;Acc:28848]

Sequence

>retro_tbel_1528
CTGCCAACAGGTGACCACACTGGTCAGGAGGGAGAGACTGAGAGGGCCATGGATTGACTAGCCAGTGGAACCCAGAGCAT
CACTAATGACAGTCCTGCCCATGGTGAGGGCTCTCATTCTGAAGAGGAAGGCTCTGCTGTGGATGATGAGGATTCCGATG
GGGAACCAGATACCTGAGAACTGTCCAAAGGGACACACTGTCCACCCAAGGAACAGACTGGTGATCTA

Alignment

ORF - retro_tbel_1528 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.92 %
• Parental protein coverage: 59.54 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LAAGDHSGQEGETEKAMDRLGKTSGAQSIANDSPAHGEGTRSEEEGFAVDEEESDGEPDTWELSEGTHCP
          L..GDH.GQEGETE.AMD.L...SG.QSI.NDSPAHGEG..SEEEG.AVD.E.SDGEPDT.ELS.GTHCP
Retrocopy LPTGDHTGQEGETERAMD*LA--SGTQSITNDSPAHGEGSHSEEEGSAVDDEDSDGEPDT*ELSKGTHCP

Parental  PREQTGDL
          P.EQTGDL
Retrocopy PKEQTGDL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq

Tupaia belangeri was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tbel_1528 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1528 was not experimentally validated.

Homology

Retrocopy orthology:

Tupaia belangeri does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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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,