RetrogeneDB ID: retro_oana_111

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: Ultra317:328352..328799(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000004113
• Aliases: None
• Description: None

Sequence

>retro_oana_111
AGAAACCAGTACCAGATGCTGCACAGGATATATAATCAATGCGAGGTGGTCATGGGGAACCTGGCGACTGTCCTGACCTG
TTACAGCCTGGACCTGTTCTTCCTGCAGTGATTCCTGGAGGTGACAAGCTATGTGCTCGTGGTCATGAATGAGTTTTCAG
AGCTGCTGCTGCCCAACCTGTGGGTGGTGTGGGGCACTCAGCTCTATGAAGGCAATGTCACACCCTTCATCCTGCTCAAA
ATCAATGGCAGCCATACTGTGCTCCAGCTCCACCTCACCCAGTTTACTGAGATCCTGGCTGGAGGAATTTATATTTAACT
CAACAAGAAGCTATGCCATATGGACATCAACTACTGGAAGGACATTGGGTGGGGGCTTCAGGCTGAGATCATGGTTAAAA
GCAATGGGCAGAGTTGCCCTCCAAGCCATGAGATGTGCAGTGCTCAG

Alignment

ORF - retro_oana_111 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.24 %
• Parental protein coverage: 74.63 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KNQYQTLHKMYNLCEV-MGNLEIVLTGHSPDLSFLQWIREVTGYVLVAMNEFSELPLPNLRVVRGAQLYE
          .NQYQ.LH..YN.CEV.MGNL..VLT..S.DL.FLQ...EVT.YVLV.MNEFSEL.LPNL.VV.G.QLYE
Retrocopy RNQYQMLHRIYNQCEVVMGNLATVLTCYSLDLFFLQ*FLEVTSYVLVVMNEFSELLLPNLWVVWGTQLYE

Parental  GKFALFVLLNYNTNSSHALRQLRLTQLTEILAGGVYIERNEKLCHMDTIDWKDIVRDPRAEIVVKSNGQS
          G....F.LL..N...SH...QL.LTQ.TEILAGG.YI..N.KLCHMD...WKDI.....AEI.VKSNGQS
Retrocopy GNVTPFILLKIN--GSHTVLQLHLTQFTEILAGGIYI*LNKKLCHMDINYWKDIGWGLQAEIMVKSNGQS

Parental  CPPCHEKCGGK
          CPP.HE.C...
Retrocopy CPPSHEMCSAQ

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	0.26 RPM
SRP007412_cerebellum	0.00 RPM	0.37 RPM
SRP007412_heart	0.00 RPM	0.71 RPM
SRP007412_kidney	0.00 RPM	0.89 RPM
SRP007412_liver	0.00 RPM	4.16 RPM
SRP007412_testis	0.00 RPM	4.51 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_111 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_111 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	ENSOANG00000004113	1 retrocopy	retro_oana_111 ,