RetrogeneDB ID: retro_meug_1478

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold420586:334..666(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMED2
• Ensembl ID: ENSMEUG00000006459
• Aliases: None
• Description: transmembrane emp24 domain trafficking protein 2 [Source:HGNC Symbol;Acc:16996]

Sequence

>retro_meug_1478
AAGTTTTATTTCAGCAACAGAAAGTCCACCATGACTCCCAAGATAGTGGTGTTCACTATTGAGATTGCAGAATCTCCAAA
GGGCCAAGACGTAGAAACAGAAGCTCATCAGAACAAGCTGGAAGAGATGATTAATGAGATTGTTGTGGTGATGATAGCAG
TAAAGCTCTAACAGGAATACATGGACGTCCGAGAGAGAATACACATAACAATTAATGACAACACAAACAGCAGAGTGGTC
CTCTGGTCCTTCTTTGAAGTCCTCATATTAGTTGCCATGACATTGGACAGATCTACTACCTGAAGAGATTTTTTAAAGTT
CGGATGGCTGTC

Alignment

ORF - retro_meug_1478 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.36 %
• Parental protein coverage: 55.22 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KFCFSNRMSTMTPKIVMFTIDIGEAPKGQDMETEAHQNKLEEMINELAVAMTAVKHEQEYMEVRERIHRA
          KF.FSNR.STMTPKIV.FTI.I.E.PKGQD.ETEAHQNKLEEMINE..V.M.AVK..QEYM.VRERIH..
Retrocopy KFYFSNRKSTMTPKIVVFTIEIAESPKGQDVETEAHQNKLEEMINEIVVVMIAVKL*QEYMDVRERIHIT

Parental  INDNTNSRVVLWSFFEALVLVAMTL-GQIYYLKRFFEVRRVV
          INDNTNSRVVLWSFFE.L.LVAMTL.GQIYYLKRFF.VR..V
Retrocopy INDNTNSRVVLWSFFEVLILVAMTL<GQIYYLKRFFKVRMAV

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_1478 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1478 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000039630	2 retrocopies	retro_btau_52, retro_btau_819,
Macropus eugenii	ENSMEUG00000006459	2 retrocopies	retro_meug_1478 , retro_meug_745,
Oryctolagus cuniculus	ENSOCUG00000003453	1 retrocopy	retro_ocun_576,