RetrogeneDB ID: retro_meug_954

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold24346:4494..4865(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PDDC1
• Ensembl ID: ENSMEUG00000005033
• Aliases: None
• Description: Parkinson disease 7 domain containing 1 [Source:HGNC Symbol;Acc:26616]

Sequence

>retro_meug_954
CCTGCCTCATCATGGCCAGTGCCACCAGCTGCCTATGGTAGGTCAGTTCACTCATTCCTCCACTGCTTCACCATGGGCAG
TACTGTCTTCAGCCTGCAAGTGGCCACACCAGGGGGAAGGCCATTGACTTTGTGGGCATGAATGAGAACAACAGGCACTT
AATCCAGGACTTCCACATGAAGCCCTGCACCAGCCTTGCCAAGCTAGAGTCCATCGATGGTACCAGGTACCATGCCCTTC
TCATCCTCAACTGTGTTGGGGTACTGACTGACCTTGCCAACAGTGGGTACTTGGCCAGGATCTTAGAGCACTTCAGCACT
GAGCAGAAACCTGTCCGTACTGTGGGGCATGGAGTAGCTGTTCCGCTGTGC

Alignment

ORF - retro_meug_954 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.4 %
• Parental protein coverage: 68.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PACLIVASAAARGVSAHSFLHCFTMGSAAFNLQVATPGG-KTIDFVGVNENSMRWIQDFRMKAYASPAKL
          PA.......AA.G.S.HSFLHCFTMGS..F.LQVATPGG.K.IDFVG.NEN....IQDF.MK...S.AKL
Retrocopy PASSWPVPPAAYGRSVHSFLHCFTMGSTVFSLQVATPGG<KAIDFVGMNENNRHLIQDFHMKPCTSLAKL

Parental  ESIDGARYHALLIPSCPGALTDLANSGYLARILEHFSTEQKPICAIGHGVAALCC
          ESIDG.RYHALLI..C.G.LTDLANSGYLARILEHFSTEQKP....GHGVA...C
Retrocopy ESIDGTRYHALLILNCVGVLTDLANSGYLARILEHFSTEQKPVRTVGHGVAVPLC

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_954 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_954 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000005033	1 retrocopy	retro_meug_954 ,
Myotis lucifugus	ENSMLUG00000017584	1 retrocopy	retro_mluc_2267,
Mus musculus	ENSMUSG00000051007	1 retrocopy	retro_mmus_2040,
Rattus norvegicus	ENSRNOG00000046382	1 retrocopy	retro_rnor_1887,
Sarcophilus harrisii	ENSSHAG00000003122	1 retrocopy	retro_shar_496,