RetrogeneDB ID: retro_oana_126

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: Ultra84:6320133..6320799(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000009505
• Aliases: None
• Description: None

Sequence

>retro_oana_126
GCATATGCCGCTGATCCGACGGACAGCTTGCCGGCCCGTGAGCTGCCCTGCGCTAGAAATGAAGAGCAATATGGTGGTGT
TGGAAACGGTGGACACGTGTAGCTCCAACCTTCTGTTTGGTTCAGACCTCCAGTACGCAAACAGGGTGGATGAGGTGGTG
TTCAATTTGTACTTTGGTCTTGGGACTCCAGACTACTCCAAGATTCAGATGACCAAAGGGGAAAAATGGTGGCGTGGTAT
GAGCAGTGTCATGGAAGACAAGAAATGCCAGTGGGTGGACAGTTTCTCCCTCCACCGCAGGGTGTGCCAGGGAGATTCAG
AATTGCCGAGCTGACTGTTCAATGACAATTTTTCAGTCAACCAGTTGGACGGTGATCCCGGGGCACCAATCCATTACACA
TGCTCACGTGAGAAAATGGAAGCCGCTCAACTGCTGCTGGATAACGGGAAATGTATTCCAAACCTTCTAATAGGACAGTT
TAATTCTCTTCATTTTGCTGCTGGAGGAAGGAAGCTGAAATAGCGCAGATCCTGCTACATCATCCAGAAATTGACAGACA
CGTTAGTGACCTGCAAGGAAGATTCCCACTGAACATCCGCAAAGAAAAAAAGCCGAATAAATAGGAGGAGACGGCAAAGC
TGTTAAAGGAATCCCTGAATGACCCC

Alignment

ORF - retro_oana_126 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.28 %
• Parental protein coverage: 50.68 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AYATDPGPTD-SALHMGYTALEIKSKMVALETADTCIYNPLFGSDLQYTNRVDKVVINPYFGLGAPDYSK
          AYA.D..PTD.........ALE.KS.MV.LET.DTC..N.LFGSDLQY.NRVD.VV.N.YFGLG.PDYSK
Retrocopy AYAAD--PTD>ACRPVSCPALEMKSNMVVLETVDTCSSNLLFGSDLQYANRVDEVVFNLYFGLGTPDYSK

Parental  IQIPKQEKWRRSMSSVMEDKERQWVDDFPLHRSACEGDSELLSRLLDDNFSVNQLDSDHWAPIHYACWYG
          IQ..K.EKW.R.MSSVMEDK..QWVD.F.LHR..C.GDSEL.S.L..DNFSVNQLD.D..APIHY.C...
Retrocopy IQMTKGEKWWRGMSSVMEDKKCQWVDSFSLHRRVCQGDSELPS*LFNDNFSVNQLDGDPGAPIHYTCSRE

Parental  KVEATRMLLDKGKCNPNLLNGQLSSPLHFAAGG-GHAEIVQILLQHPEIDRHISDQQGRSPLNICEESKQ
          K.EA...LLD.GKC.PNLL.GQ..S.LHFAAGG...AEI.QILL.HPEIDRH.SD.QGR.PLNI..E.K.
Retrocopy KMEAAQLLLDNGKCIPNLLIGQFNS-LHFAAGG<KEAEIAQILLHHPEIDRHVSDLQGRFPLNIRKEKKP

Parental  NEWEETAKLLKESLNKP
          N..EETAKLLKESLN.P
Retrocopy NK*EETAKLLKESLNDP

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	26.32 RPM
SRP007412_cerebellum	0.00 RPM	39.14 RPM
SRP007412_heart	0.00 RPM	34.45 RPM
SRP007412_kidney	0.00 RPM	39.68 RPM
SRP007412_liver	0.00 RPM	16.45 RPM
SRP007412_testis	0.00 RPM	32.50 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_126 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_126 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Ornithorhynchus anatinus	ENSOANG00000009505	1 retrocopy	retro_oana_126 ,