RetrogeneDB ID: retro_oana_37

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: Contig160324:44..1298(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000002348
• Aliases: None
• Description: None

Sequence

>retro_oana_37
GTTAAGGTGAAATTTGATGAAGTGGCAGGCATGAAGGAAGCAAAACGTGAGATCAGTGAATTTGTCGATTTTTTAAAGAA
CCCTAAAATGTATGAATCGTATGGGGCGAAAATTCCAAAAGGGGCACTTCTTTGTGGGGCGCCAGGTACGGGCAAGACCT
TGTTGGCAAAAGCAGTTGCCGGTGAAGCAAATGTGCCTTTTTATTCGATATCCGGAAGCGATTTCATTGAGGTTTTCGTG
GGAGTAGGGCCGTCAAGAGTACGTGACCTGTTTGAAAAAGCTAGAAAGACTGCACCTTCGATAATATTTATTGATGAAAT
AGATGCTGTTGGTAAGAAACGTGCGAAAGGAGGTTTTGGCGGCGGCGCGAATGACGAACGGGAAAATACATTGAATCAAA
TTCTTGTTGAGATGGACGGGTTTAAACCAAGTTGTGGTGTCGTTGTCTTAGCCGGTACAAATAGGGCCGATATTTTAGAT
CCCGCCCTAATTAGGCCTGGTAGATTTGATCGCACAGTAAATATATCAAAACCAGACTTAGAAGAACGTTACGAAATATT
TAAAGTTCACCTGAAACCAATAAAATTCAAAGAATCTCTTAATATTGATGACATGGCTAGACGTCTCGCATCATTAACGC
CAGGTTTTGTTGGTGCAGAGATTGCCAATGTTTCCAATGAGGCAGCAATACAGGCAGCAAGACGGAAATCTAGGGATGGA
GTTGATATTGTTGATTTTGATAATGCAATAGAAAGAGTTATCGCTGGCATGGCTAAAGCACCTGGGCTGCTAACACCGCA
GCAAAAACTCGCCGTGGCATACCACGAAGTTGGACATGCTCTAATTGGGTGGTGGCTAGAACACGCCGATCCAGTTTTGA
AGGTTTCTATTGTACCGAGATCGAGTGGGGCACTGGGGTTTGCTCAACATCTTCCCGATGAAGCAATGTTATTTAGCCGT
GACGCATTGTTGGATAAAATTGCAGTAATACTGGGAGGAAGAGCCGCAGAAGATATATTTATAGGTAAAATAACAACGGG
CGCCACCGATGACTTGAATAAGGTTACCAAAATGTGCTATGCATTTGTGTCCCAGTGGGGCATGAATTCACAGCTAGGTC
TAGTGTCGTTTCAGCATGATGCCGCATCAGAACCTGAATTTTACCGTACGTATTCTGAGAGCACTGCACAACTGATTGAC
AAGGAAGTCAGAACTATTATAGAGACGCAATATCAACGGGTCAAGAGTATTCTC

Alignment

ORF - retro_oana_37 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.81 %
• Parental protein coverage: 57.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IDVRFSDVAGCEEAKLEIMEFVNFLKNPKQYQDLGAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITV
          ..V.F..VAG..EAK.EI.EFV.FLKNPK.Y...GAKIPKGA.L.G.PGTGKTLLAKA.AGEANVPF...
Retrocopy VKVKFDEVAGMKEAKREISEFVDFLKNPKMYESYGAKIPKGALLCGAPGTGKTLLAKAVAGEANVPFYSI

Parental  NGSEFLEMFVGVGPARVRDMFAMARKNAPCILFIDEIDAIGRKRGRGNFGG--QSEQENTLNQMLVEMDG
          .GS.F.E.FVGVGP.RVRD.F..ARK.AP.I.FIDEIDA.G.KR..G.FGG....E.ENTLNQ.LVEMDG
Retrocopy SGSDFIEVFVGVGPSRVRDLFEKARKTAPSIIFIDEIDAVGKKRAKGGFGGGANDERENTLNQILVEMDG

Parental  FNSSTNVVVLAGTNRPDILDPALMRPGRFDRQIYIGPPDIKGRSSIFKVHLRPLKLDENLGKEALARKLA
          F..S..VVVLAGTNR.DILDPAL.RPGRFDR...I..PD...R..IFKVHL.P.K..E.L.....AR.LA
Retrocopy FKPSCGVVVLAGTNRADILDPALIRPGRFDRTVNISKPDLEERYEIFKVHLKPIKFKESLNIDDMARRLA

Parental  ALTPGFTGADISNVCNEAALIAARHLN-PSVKEKHFEQAIERVIGGLEKKTQVLQPNEKATVAYHEAGHA
          .LTPGF.GA.I.NV.NEAA..AAR......V....F..AIERVI.G..K....L.P..K..VAYHE.GHA
Retrocopy SLTPGFVGAEIANVSNEAAIQAARRKSRDGVDIVDFDNAIERVIAGMAKAPGLLTPQQKLAVAYHEVGHA

Parental  VVGWFLEHADPLLKVSIIPRGKG-LGYAQYLPKEQYLYTREQLFDRMCMMLGGRVAEQLFFGRITTGAQD
          ..GW.LEHADP.LKVSI.PR..G.LG.AQ.LP.E..L..R..L.D.....LGGR.AE..F.G.ITTGA.D
Retrocopy LIGWWLEHADPVLKVSIVPRSSGALGFAQHLPDEAMLFSRDALLDKIAVILGGRAAEDIFIGKITTGATD

Parental  DLRKVTQSAYAQIVQFGMSDKLGQVSFDLPRQGDTVVEKPYSEATAQLIDEEVRLLINAAYDRTVELL
          DL.KVT...YA...Q.GM...LG.VSF.............YSE.TAQLID.EVR..I...Y.R....L
Retrocopy DLNKVTKMCYAFVSQWGMNSQLGLVSFQHDAASEPEFYRTYSESTAQLIDKEVRTIIETQYQRVKSIL

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	87.08 RPM
SRP007412_cerebellum	0.00 RPM	75.14 RPM
SRP007412_heart	0.00 RPM	81.12 RPM
SRP007412_kidney	0.00 RPM	109.26 RPM
SRP007412_liver	0.00 RPM	49.45 RPM
SRP007412_testis	0.00 RPM	78.28 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_37 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_37 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
Bos taurus	ENSBTAG00000038051	2 retrocopies	retro_btau_1055, retro_btau_1517,
Ornithorhynchus anatinus	ENSOANG00000002348	1 retrocopy	retro_oana_37 ,