RetrogeneDB ID: retro_meug_147

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_4313:69272..69501(+)
• Located in intron of: ENSMEUG00000005388

Retrocopy information

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

Parental gene information

• Parental gene symbol: SMIM20
• Ensembl ID: ENSMEUG00000002680
• Aliases: None
• Description: small integral membrane protein 20 [Source:HGNC Symbol;Acc:37260]

Sequence

>retro_meug_147
CTTGTGCCACATATTCCAAGCTTGGGTCACGTCTCACAAGCTGCACACAATGATAATTTTCAGCAGCCTCGCCTTCCTCT
TGGGTGCCACCTTCTACCTCATCTGTTTCTGGCCCCTAATGAAGACCAAGGAGTACAAGCTGTAATGAGCCATAAACCAG
GCTGATATTATCCAAACAGATGTGCAGCCACCAGGATTAACAGTGTGGTCTGATCCATTTGGAAGGAAG

Alignment

ORF - retro_meug_147 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.14 %
• Parental protein coverage: 75.76 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VLPDLPSS-VMSRNLRTTMIFGGFALLLGAAFYPIYFRPLMRTEEYKVEQAMNDR-IVQADMQPPGLKVW
          ..P..PS..V.S..L.T..IF...A.LLGA.FY.I.F.PLM.T.EYK...A.N...I.Q.D.QPPGL.VW
Retrocopy LVPHIPSL>VTSHKLHTMIIFSSLAFLLGATFYLICFWPLMKTKEYKL**AINQADIIQTDVQPPGLTVW

Parental  SDPFGRK
          SDPFGRK
Retrocopy SDPFGRK

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_147 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_147 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.

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000003897	1 retrocopy	retro_btau_95,
Dasypus novemcinctus	ENSDNOG00000004966	2 retrocopies	retro_dnov_1474, retro_dnov_1529,
Macropus eugenii	ENSMEUG00000002680	1 retrocopy	retro_meug_147 ,
Microcebus murinus	ENSMICG00000017222	1 retrocopy	retro_mmur_868,
Macaca mulatta	ENSMMUG00000006680	1 retrocopy	retro_mmul_179,
Nomascus leucogenys	ENSNLEG00000016894	1 retrocopy	retro_nleu_216,
Ictidomys tridecemlineatus	ENSSTOG00000004810	1 retrocopy	retro_itri_699,
Tupaia belangeri	ENSTBEG00000015052	2 retrocopies	retro_tbel_1277, retro_tbel_4083,