RetrogeneDB ID: retro_oana_65

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: Contig26799:8361..8930(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000013669
• Aliases: None
• Description: None

Sequence

>retro_oana_65
CTACAATCAACATTTAAAGGAGTGGAATAACTACATTTTATGAAAAAAATACATTGTGATATCAAGGCTGTAAAAGTCTA
AAATACTGAAGGACATGCAAAGCTTGCAGACTTTGGGGTAGCTGGCCAACTCACTGAGACAAGGGCGAAATGAAACACAG
TGATCAGAATACCATTCTATATGGTTCCAGAAGTGATCCAGGAAATTGGGTACAATTGTGTGGCAGATATCTGGTCTTTG
GGAATTACTGCCATAGAAATAGCCAAAGGAAAGTTCCCATATGCTGATATACATCCAATGAGAGCAATTTTCATGATTCC
CAAGAACCCTCCTCCCAAATTCTGAAAATCAGAGCTCTGGTAGGACAACTTCACCAATTTTGTAAAGCTGTGTCTTGTGA
TGAGCCCTGACCAGAGAGCCATAGCTACTCAACTCCTCTGACAGGCATTTGTCATGCACACCAAAAGAATGTCAATGTTT
CACAACGAAGCCTGGTTGTGAAACTGAAATGCCAGGAAGCCCAGCAACATGAAGCTGACCAAGATGGTGTGGAAAATTCA
GAAGAAGAT

Alignment

ORF - retro_oana_65 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.31 %
• Parental protein coverage: 68.31 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LQSTLKGLEYLHFMRKIHRDIKAGNILLNTEGHAKLADFGVAGQLTDTMAKRNTVIGTPFWMAPEVIQEI
          LQST.KG.E.LHFM.KIH.DIKA.....NTEGHAKLADFGVAGQLT.T.AK.NTVI..PF.M.PEVIQEI
Retrocopy LQSTFKGVE*LHFMKKIHCDIKAVKV*-NTEGHAKLADFGVAGQLTETRAK*NTVIRIPFYMVPEVIQEI

Parental  GYNCVADIWSLGITAIEMAEGKPPYADIHPMRAIFMIPTNPPPTFRKPELWSDNFTDFVRQCLVKSPDQR
          GYNCVADIWSLGITAIE.A.GK.PYADIHPMRAIFMIP.NPPP.F.K.ELW.DNFT.FV..CLV.SPDQR
Retrocopy GYNCVADIWSLGITAIEIAKGKFPYADIHPMRAIFMIPKNPPPKF*KSELW*DNFTNFVKLCLVMSPDQR

Parental  ATATQLLQHPFVKGAKGVSMLRDLINEA-MDVKLKRQEAQHREVDQDDEENSVSD
          A.ATQLL...FV...K..SM.....NEA...VKLK.QEAQ..E.DQD..ENS..D
Retrocopy AIATQLL*QAFVMHTKRMSMFH---NEA<LVVKLKCQEAQQHEADQDGVENSEED

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	16.43 RPM
SRP007412_cerebellum	0.00 RPM	13.39 RPM
SRP007412_heart	0.00 RPM	3.63 RPM
SRP007412_kidney	0.00 RPM	7.70 RPM
SRP007412_liver	0.00 RPM	2.89 RPM
SRP007412_testis	0.00 RPM	85.75 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_65 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_65 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Ornithorhynchus anatinus	ENSOANG00000013669	1 retrocopy	retro_oana_65 ,
Oryctolagus cuniculus	ENSOCUG00000003016	2 retrocopies	retro_ocun_1122, retro_ocun_980,