RetrogeneDB ID: retro_meug_186

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_5349:22118..22920(-)
• Located in intron of: ENSMEUG00000008539

Retrocopy information

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

Parental gene information

• Parental gene symbol: VRK1
• Ensembl ID: ENSMEUG00000012543
• Aliases: None
• Description: vaccinia related kinase 1 [Source:HGNC Symbol;Acc:12718]

Sequence

>retro_meug_186
CCAAGTGACAATGGACCTCTTTTTACAGAATTAAAGTTCTACCAGAGAGCTGCTAAACCAGAGCTAATTCAAAAGTGGAT
TCGTTCCCATAAGCTGAAGTACCTCAGTGTTCCTAAGTATTGGGGTTCTGGACTTCATGATAAAAATGGAAACTGTTATA
GGTTTATGGTAATGGACGGCTTTGGGAGTGATCTTCAGAAACTGTATGAAGCTAATGCCAAAAGGTTTTCATGGCAAACT
GTCTTGCAGTTAAGCTTAAGAATACTGGATATTCTGGAATATATCCATGAGCATGAATATGTACTTGGAGATATCTAAGC
CTCAAGTCTTCTTCTGAACTACAAGAATCCTGACCAGGTATATTTAGTAGATTATGGCCTTTTTTACCGATATTGTCCAG
AAGGAGTTCATAAAGAATACAGAGAAGACCCTAAAAGGTGTCATGATGGAACCACTGAGTATACAAGTATTGATGCACAT
AAGGGTGTGGCTCCATCACAACGAGGTGACTTGGAAATACTAGGTTACTGCATGATCCAGTGGATCAGTGGCCATCTCCC
TTGGGAGGACAATTTGAAAGATCCTCACTATGTCTGAGATTCCAAAATTAGCTACCAAGAAAATATTGCAAGTTTGATGG
ACAAGTGTTTTCCTGAGAAAAATAAGCCAGATGAAATTGCTAAATATAGGAAGAAGTGAAATAATTGGCTGCACAGAAAA
ACCTCATTATCAGAATTTATGGGAAATACTTTTGCAAGGGCTCAAGGCTACAGGAAATAAGGATGATGGCAAACTGGACT
TG

Alignment

ORF - retro_meug_186 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.96 %
• Parental protein coverage: 69.29 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PSDNGPLFTELKFYQRAAKPELIQKWIRSHKLKYLGVPKYWGSGLHDKNGNSYRFMVIDRFGSDLQKLYE
          PSDNGPLFTELKFYQRAAKPELIQKWIRSHKLKYL.VPKYWGSGLHDKNGN.YRFMV.D.FGSDLQKLYE
Retrocopy PSDNGPLFTELKFYQRAAKPELIQKWIRSHKLKYLSVPKYWGSGLHDKNGNCYRFMVMDGFGSDLQKLYE

Parental  ANAKRFSRKTVLQLSLRILDILEYIHEHEYVHGDIKASNLLLNYKNPDQ-YLVDYDLNYQYHPEGVHKEY
          ANAKRFS..TVLQLSLRILDILEYIHEHEYV.GDI.AS.LLLNYKNPDQ.YLVDY.L.Y.Y.PEGVHKEY
Retrocopy ANAKRFSWQTVLQLSLRILDILEYIHEHEYVLGDI*ASSLLLNYKNPDQVYLVDYGLFYRYCPEGVHKEY

Parental  KEDPKRYHD-ITEDTSIDAHKGVA-SSRNDLEIISYCKIQWLSGCLP-EDNLKYPNCIRDSKIGHQENIA
          .EDPKR.HD..TE.TSIDAHKGVA.S.R.DLEI..YC.IQW.SG.LP.EDNLK.P....DSKI..QENIA
Retrocopy REDPKRCHDGTTEYTSIDAHKGVAPSQRGDLEILGYCMIQWISGHLPWEDNLKDPHYV*DSKISYQENIA

Parental  SLMDKCFPEKNKPDEIAKSM-EEVK-LLGYTGKSHYQSLQEILLQGLKATGNKDDGKLDL
          SLMDKCFPEKNKPDEIAK...EEVK...G.T.K.HYQ.L.EILLQGLKATGNKDDGKLDL
Retrocopy SLMDKCFPEKNKPDEIAKYR<EEVK<IIGCTEKPHYQNLWEILLQGLKATGNKDDGKLDL

Legend:

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

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_186 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_186 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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.

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000001772	1 retrocopy	retro_cpor_1214,
Danio rerio	ENSDARG00000018006	1 retrocopy	retro_drer_17,
Macropus eugenii	ENSMEUG00000008792	1 retrocopy	retro_meug_543,
Macropus eugenii	ENSMEUG00000012543	1 retrocopy	retro_meug_186 ,
Otolemur garnettii	ENSOGAG00000016785	1 retrocopy	retro_ogar_2000,
Sorex araneus	ENSSARG00000009110	2 retrocopies	retro_sara_287, retro_sara_337,
Ictidomys tridecemlineatus	ENSSTOG00000011492	1 retrocopy	retro_itri_1674,