RetrogeneDB ID: retro_oana_64

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: Contig266093:183..1224(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000011274
• Aliases: None
• Description: None

Sequence

>retro_oana_64
CGGCGTCTAGCTCTGGCCAGTTTGTTGGATTTATCACCTACTCGAGAATTGGCTGTGCAAACTTTTACTGAGGCTCGCAA
GTTTAATTTTAAGACAGGCATCCGCACTGTAGTGCTGTATGGTGGCAGCGAAGTTCGAACTCAGCTGCAAGACCTCGAAC
GTGGGTGTGATATTTGTGTGGCAACTCCAGGGCGTCTCAATGACCTTTTGGACAGGCGCTTGGTGGGATTTGCGTGTGTT
CGGTTTTTGGTATTGGACGAAGCGGACAGAATGTTAGATATGGGTTTTGCTCCGCAAATTCGTGCCATTGTCGAAAACAA
TAGCATGCCCTCCAAGGGCCGCCAGACTGTTATGTTTAGTGCGACGTTCCCCAAAGAAATCCAACAACTTGCTAGGGACT
TTTTGAATGATTATATTTATTTGGCTGTTGGCAGAGTTGGGTCAACTAATGAGTTTATTAGACAGCGGCTCATTTACGCG
GACCAGGATCAAAAACCCAAATATCTAGTGAAACTCCTAAAGGAAAACACTTCTGGGTTGGTGTTGGTGTTTGTAGAAAC
CAAACGTCGTGCTGACATGATTGAGGGTTACCTTTTGAGCGAAAACTTTCTTGCTGGAAACATCCATGGCGACAGAAGCC
AGCAAGATCGCGAAGAGGCATTGCACTTGTTTAAAAGTGGTGAACGGCCAATTTTGGTGGCCACTGACGTTGCCGCCAGA
GGTCTCGACATTAATAATATCACACATGTTATCAATTGCGACTTGCCAACAAACATTGATGATTACGTCCATCGTATTGG
TCGTACTGGCCGCGCGGGGAACGTTGGTATCGCTACGAGTTTTGTCAATGAAAACAACAGGCCCATACTGAAAGACCTTT
TAGCGTTGCTGCAAGAAGCCAACCAAGAAGTCCCAGCGTGGTTTCAGAAACTGGTAGCCAGTCAGAGCAACGCAAGTGGT
AACTACGGGCGCAACCGCTATGGAGGGGGTGGCGCAAGCGGTGGTACAGGCTCCTATAAATCCTCCAAAGGCTTCGCAAG
C

Alignment

ORF - retro_oana_64 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.87 %
• Parental protein coverage: 52.48 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RRKQYPISLVLAPTRELAVQIYEEARKFAYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMM
          RR......L.L.PTRELAVQ...EARKF......R..V.YGG.....Q..DLERGC...VATPGRL.D..
Retrocopy RRLALASLLDLSPTRELAVQTFTEARKFNFKTGIRTVVLYGGSEVRTQLQDLERGCDICVATPGRLNDLL

Parental  ERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPQKGIRHTMMFSATFPKEIQMLARDFLDEYI
          .R...G......LVLDEADRMLDMGF.PQIR.IVE...MP.KG.R.T.MFSATFPKEIQ.LARDFL..YI
Retrocopy DRRLVGFACVRFLVLDEADRMLDMGFAPQIRAIVENNSMPSKG-RQTVMFSATFPKEIQQLARDFLNDYI

Parental  FLAVGRVGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSI
          .LAVGRVGST.E.I.Q.........K...L..LL.......L.LVFVETK..AD..E..L..E......I
Retrocopy YLAVGRVGSTNEFIRQRLIYADQDQKPKYLVKLLKEN-TSGLVLVFVETKRRADMIEGYLLSENFLAGNI

Parental  HGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLA
          HGDRSQ.DREEALH.F.SG..PILVAT.VAARGLDI.N..HVIN.DLP..I..YVHRIGRTGR.GN.G.A
Retrocopy HGDRSQQDREEALHLFKSGERPILVATDVAARGLDINNITHVINCDLPTNIDDYVHRIGRTGRAGNVGIA

Parental  TSFFNERNINITKDLLDLLVEAKQEVPSWLENMAYEHHYKGSSRGRSKSSRFSGGFGARDYRQSSGASS
          TSF.NE.N..I.KDLL.LL.EA.QEVP.W...............GR..........G...Y..S.G..S
Retrocopy TSFVNENNRPILKDLLALLQEANQEVPAWFQKLVASQSNASGNYGRNRYGGGGASGGTGSYKSSKGFAS

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	254.87 RPM
SRP007412_cerebellum	0.00 RPM	346.57 RPM
SRP007412_heart	0.00 RPM	179.42 RPM
SRP007412_kidney	0.00 RPM	290.77 RPM
SRP007412_liver	0.00 RPM	187.05 RPM
SRP007412_testis	0.00 RPM	564.66 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_64 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_64 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.

---

Parental genes homology:

Parental genes homology involve 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000035907	1 retrocopy	retro_btau_1846,
Callithrix jacchus	ENSCJAG00000009050	2 retrocopies	retro_cjac_1428, retro_cjac_4062,
Cavia porcellus	ENSCPOG00000013557	2 retrocopies	retro_cpor_326, retro_cpor_53,
Equus caballus	ENSECAG00000009901	1 retrocopy	retro_ecab_413,
Homo sapiens	ENSG00000215301	1 retrocopy	retro_hsap_4709,
Macaca mulatta	ENSMMUG00000017569	2 retrocopies	retro_mmul_1898, retro_mmul_2504,
Mus musculus	ENSMUSG00000000787	1 retrocopy	retro_mmus_205,
Ornithorhynchus anatinus	ENSOANG00000011274	1 retrocopy	retro_oana_64 ,
Pongo abelii	ENSPPYG00000020257	1 retrocopy	retro_pabe_3657,
Pan troglodytes	ENSPTRG00000022488	1 retrocopy	retro_ptro_3130,
Rattus norvegicus	ENSRNOG00000023383	1 retrocopy	retro_rnor_1415,