RetrogeneDB ID: retro_meug_745

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold173310:3688..4110(+)
• 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_745
ATTACAGGTCCTGATAATAAAGGAATCTATAAAGGAGACAGAGAGTTCAGTGGAAAATACACTTTTGCAGCTCACATGCA
TGGAACATACAAGTTTTGTTTTAGCAACAGAATGTCAACCATGACTCCCAAGAGAGTGATGTTCTCTACTGATATTGGAA
AAACTCCAAAGGGCCAAGACATTGAAACAGAAGCTCATCAGAACAAGCTGGAAGAGGTGATTAATGAACTCGCTGTGGCA
ATGACAGCGGTAAAGCATGAACAGGAGTCATGGAAGTCCGGGAGGGAATATACACAGCAATTAACGACAACACAGATGGC
AGAGTGGTCCTCTGGTCCTTCTTGAAACCTTCGTACTAGTTGCCATGACATAGGGACAGATCTACTACCTGAAGAGATTT
TTTTGAAGTCTGAAGGGTTGTC

Alignment

ORF - retro_meug_745 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.03 %
• Parental protein coverage: 70.15 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  ITGPDNKGIYKGDRESSGKYTFAAHMDGTYKFCFSNRMSTMTPKIVMFTIDIGEAPKGQDMETEAHQNKL
          ITGPDNKGIYKGDRE.SGKYTFAAHM.GTYKFCFSNRMSTMTPK.VMF..DIG..PKGQD.ETEAHQNKL
Retrocopy ITGPDNKGIYKGDREFSGKYTFAAHMHGTYKFCFSNRMSTMTPKRVMFSTDIGKTPKGQDIETEAHQNKL

Parental  EEMINELAVAMTAVKHEQE-YMEVRERIHRAINDNTNSRVVLWSF-FEALVLVAMTLGQIYYLKR-FFEV
          EE.INELAVAMTAVKHEQE..MEVRE.I..AINDNT..RVVLWSF..E..VLVAMT.GQIYYLKR.FFEV
Retrocopy EEVINELAVAMTAVKHEQE<VMEVREGIYTAINDNTDGRVVLWSF<LETFVLVAMT*GQIYYLKR>FFEV

Parental  RRVV
          .RVV
Retrocopy *RVV

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_745 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_745 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 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,