RetrogeneDB ID: retro_oana_109

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: Ultra284:4604731..4605112(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000007394
• Aliases: None
• Description: None

Sequence

>retro_oana_109
TGCTGCCCCTTCAGAAGCGGCATGCAGGCAAAAGCATGGCTGAGAAATCTAATCCCAAAATTCTGGAAGCAGTGTTATCA
TTTGGGCTGAGTCATTGGGACTGAGGAAGGAATTAGCCTGAAGCATGGCAATGAAATATACATTGCTCCATCAGTAATCA
AGAAAAGAATTAGTTTAGCCTGTAGATACATTTTTTGTGACAGAAATAAGCAGGACATCAGTGAACCTTCACCTTATAAG
AATCTAAGGAACGATCCAATGTATTCCTCTTTTTATGAATGCTTATGCCATAAGAGACGTCAGAGCAGTGATTCATAGTC
GTTCTGGACTGTTGTCCTGGCTACACTTCTCTTTGCAGAACATGAGTTTAAAATTATGCAT

Alignment

ORF - retro_oana_109 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.54 %
• Parental protein coverage: 52.26 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  CCPRVASVQDKEHPRNLIPELCKQFYHLGWVTGTGGGISLKYGNEIYIAPSGV-QKERIQPEDMF-VCDI
          CCP.....Q.K...RNLIP...KQ.YHLG.V.GT..GISLK.GNEIYIAPS....KE...P.D.F..CD.
Retrocopy CCPFRSGMQAKAWLRNLIPKFWKQCYHLG*VIGTEEGISLKHGNEIYIAPSVI>RKELV*PVDTF<FCDR

Parental  NEQDISGPPSYKNLKKS-QCTPLFMNAYTIRGAGAVIHSHSK-AAVMATLIFPGHEFKITH
          N.QDIS.P..YKNL....QC.PLFMNAY.IR...AVIHS.S....V.ATL.F..HEFKI.H
Retrocopy NKQDISEPSPYKNLRND>QCIPLFMNAYAIRDVRAVIHSRSG<TVVLATLLFAEHEFKIMH

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain	0.00 RPM	23.31 RPM
SRP007412_cerebellum	0.00 RPM	14.47 RPM
SRP007412_heart	0.00 RPM	11.78 RPM
SRP007412_kidney	0.00 RPM	21.61 RPM
SRP007412_liver	0.00 RPM	10.85 RPM
SRP007412_testis	0.00 RPM	13.88 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_109 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_109 was not experimentally validated.

Homology

Retrocopy orthology:

Ornithorhynchus anatinus 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 8 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000016758	1 retrocopy	retro_etel_220,
Homo sapiens	ENSG00000149089	1 retrocopy	retro_hsap_4208,
Gorilla gorilla	ENSGGOG00000022940	2 retrocopies	retro_ggor_2818, retro_ggor_2873,
Ornithorhynchus anatinus	ENSOANG00000007394	6 retrocopies	retro_oana_108, retro_oana_109 , retro_oana_121, retro_oana_63, retro_oana_85, retro_oana_96,
Pongo abelii	ENSPPYG00000003361	1 retrocopy	retro_pabe_3442,
Pan troglodytes	ENSPTRG00000003499	1 retrocopy	retro_ptro_2856,
Sarcophilus harrisii	ENSSHAG00000011523	1 retrocopy	retro_shar_574,
Ictidomys tridecemlineatus	ENSSTOG00000004390	1 retrocopy	retro_itri_1029,