RetrogeneDB ID: retro_meug_1548

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold44852:14748..15173(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TRAPPC3
• Ensembl ID: ENSMEUG00000013169
• Aliases: None
• Description: trafficking protein particle complex 3 [Source:HGNC Symbol;Acc:19942]

Sequence

>retro_meug_1548
GCTCTGGTCACTCAGCTTTGCAAGGACTATGAAAATGATGAAGACATGAACAAACAACTGGACAAAATCATCTCTGATAT
TGGTGTCTGATTGATTAAAGATCTCCTGGCTTGGTCAAAGGTTGGCAGGTGCCCTGATTTGGAAAACAGTGATTTCATTG
CCACAACCACATTTAAAATGTACCTGGGCATTGCCATTTGGAGCCTTGCTAGTGACAAATTCTCTCTGATGTTGGAAAAC
AACCCCATGGTTGATTTTGTGGAGCTTCCTGAAAACCACTCATTCTTCATTTATTCCTCTTTTGAGTGGGGTGCTGAGGG
GAGCCCTGCGATGGGCCAGAGGGCGGTGGGTGTGAAGTTTGCTCAAGACATGCTGAATGAGATGGGGTGACAGAAATCAG
GATGAGGCTCATCAAGTGGATTGAA

Alignment

ORF - retro_meug_1548 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.43 %
• Parental protein coverage: 82.22 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ALVTQLCKDYENDEDVNKQLDKMGYNIGVRLIEDFLARSNVGRCHDFRETADVIAKVAFKMYLGITPSIT
          ALVTQLCKDYENDED.NKQLDK....IGV.LI.D.LA.S.VGRC.D..E..D.IA...FKMYLG....I.
Retrocopy ALVTQLCKDYENDEDMNKQLDKIISDIGV*LIKDLLAWSKVGRCPDL-ENSDFIATTTFKMYLG----IA

Parental  NWSPAGDEFSLILENNPLVDFVELPDNHSSLIYSNLLCGVLRGALEMVQMAVDVKFVQDTLKG-DGVTEI
          .WS.A.D.FSL.LENNP.VDFVELP.NHS..IYS....G...G...M.Q.AV.VKF.QD.L...DGVTEI
Retrocopy IWSLASDKFSLMLENNPMVDFVELPENHSFFIYSSFEWGA-EGSPAMGQRAVGVKFAQDMLNE<DGVTEI

Parental  RMRFIKRIE
          RMR.IK.IE
Retrocopy RMRLIKWIE

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_1548 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1548 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000019015	2 retrocopies	retro_dnov_1727, retro_dnov_955,
Macropus eugenii	ENSMEUG00000013169	1 retrocopy	retro_meug_1548 ,
Myotis lucifugus	ENSMLUG00000002140	1 retrocopy	retro_mluc_692,