RetrogeneDB ID: retro_meug_613

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold14647:17515..18292(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: OAT
• Ensembl ID: ENSMEUG00000005655
• Aliases: None
• Description: ornithine aminotransferase [Source:HGNC Symbol;Acc:8091]

Sequence

>retro_meug_613
GACTTCCTGAGTGCTTACAGTGCTGTGAACCCAGGACATTGCCACCCCAAAATTGTGGATGCCCTGAAAAGTCAAGTTGA
TAAATTAACCTTAACTTCTAGAGCTTTCTATAACAGTGTACTTTGTGAATATGAAGAGTATGTCACGAAGTTGTTCAACT
ACAACAAAGTTCTGCCCATGAATACAGGGGTGGAAGCTGGAGAAACTGCCTGCAAATTAGCTTGAATATGGGCATACAAT
GTGAAAGGCATTCAGAAATATAAAGCAAAGATTATTTTTGCAGCTGGAAACTTCTGGGGTTGAACATTATCTGCTATCTC
TACTCCAACTGACCCATCAAGTTATGAAGGTTTTGGGCCATTTATGCCAGGCTTTGAGATCATCCCATATAAGGACCTAC
CTGCCCTTGAGTGAGCCTTCCAGGATCCCAGTGTAGCTGCTTTCATGGTGGAGCCCATTCAGGGGGAAGCTGGCGTCATT
GTCCCTGATCCGGGTTACCTCTCTGGAGTGAGAGAGCTCTGCACCAAGTTCCAGGTTCTCTTCATTGCTGATGAAATACA
GACGGGATCAGCCAGAACTGGGAGGTGGCTGGCTGTTGATCACGAAAGTGTCAGGCTTGACATCCTCCTCCTTGGAAAGG
CCCTTTCTGGAGGCTTATACCCTGTATCGGCTGTGTTATATGATGATGAAATTATGCTGACCATTAAGCCTGGGAAGCAT
GGGTCGACTTACAGAGGCAATCCCATGGCCTGCCAGGTGGCCATGGCCTCCCTAGAG

Alignment

ORF - retro_meug_613 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.66 %
• Parental protein coverage: 76.63 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DFLSAYSAVNQGHCHPKIVDALKSQVDKLTLTSRAFYNSVLGEYEEYVTKLFNYNKVLPMNTGVEAGETA
          DFLSAYSAVN.GHCHPKIVDALKSQVDKLTLTSRAFYNSVL.EYEEYVTKLFNYNKVLPMNTGVEAGETA
Retrocopy DFLSAYSAVNPGHCHPKIVDALKSQVDKLTLTSRAFYNSVLCEYEEYVTKLFNYNKVLPMNTGVEAGETA

Parental  CKLARKWAYNVKGIQKYKAKIIFAAGNFWGRTLSAISTSTDPSSYEGFGPFMPGFEIIPYNDLPALERAL
          CKLA..WAYNVKGIQKYKAKIIFAAGNFWG.TLSAIST.TDPSSYEGFGPFMPGFEIIPY.DLPALE.A.
Retrocopy CKLA*IWAYNVKGIQKYKAKIIFAAGNFWG*TLSAISTPTDPSSYEGFGPFMPGFEIIPYKDLPALE*AF

Parental  QDPNVAAFMVEPIQGEAGVIVPDPGYLSGVRELCTKFQVLFIADEIQTGLARTGRWLAVDHENVRPDIIL
          QDP.VAAFMVEPIQGEAGVIVPDPGYLSGVRELCTKFQVLFIADEIQTG.ARTGRWLAVDHE.VR.DI.L
Retrocopy QDPSVAAFMVEPIQGEAGVIVPDPGYLSGVRELCTKFQVLFIADEIQTGSARTGRWLAVDHESVRLDILL

Parental  LGKALSGGLYPVSAVLCDDEIMLTIKPGEHGSTYGGNPLACRVAMASLE
          LGKALSGGLYPVSAVL.DDEIMLTIKPG.HGSTY.GNP.AC.VAMASLE
Retrocopy LGKALSGGLYPVSAVLYDDEIMLTIKPGKHGSTYRGNPMACQVAMASLE

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_613 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_613 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 10 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000012633	1 retrocopy	retro_cjac_2462,
Homo sapiens	ENSG00000065154	1 retrocopy	retro_hsap_4828,
Gorilla gorilla	ENSGGOG00000000848	1 retrocopy	retro_ggor_3010,
Macropus eugenii	ENSMEUG00000005655	1 retrocopy	retro_meug_613 ,
Mus musculus	ENSMUSG00000030934	1 retrocopy	retro_mmus_3475,
Nomascus leucogenys	ENSNLEG00000000482	2 retrocopies	retro_nleu_2176, retro_nleu_503,
Pongo abelii	ENSPPYG00000002737	2 retrocopies	retro_pabe_2989, retro_pabe_3754,
Pan troglodytes	ENSPTRG00000003028	1 retrocopy	retro_ptro_3213,
Sus scrofa	ENSSSCG00000010734	1 retrocopy	retro_sscr_1181,
Tursiops truncatus	ENSTTRG00000004225	1 retrocopy	retro_ttru_87,