RetrogeneDB ID: retro_oana_82

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: Contig50273:3909..5295(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000002817
• Aliases: None
• Description: None

Sequence

>retro_oana_82
CAGGGTGATGTAGTTGGAATAGATTTGGGTACTACCAATAGTTGTGTTGCCGTTATGGAGAATTCCATCCCGAAGGTCAT
AGAAAATGCTGAGGGCATGCGCACTACACCTTCCATCGTCGCCTTTACTGATGATGGCCAAAGACTTGTGGGTGTGGTTG
CGAAGCGCCAAGCTGTTACTAATCCAGAAAATACGGTTTTCGCAACAAAACGTTTCATTGGTAGGAGTTTTGACGATGAT
GCGACTCGTAAGGAACAAGCAACGCTACCTTATAAAATTGTACGAGCAAGCAATGGCGATGCTTGGATAGAAGCTCAAGG
AAAGCAATATTCTCCGAGTCAAATTGGTGCCTGTGTGTTAACTAAGATGAAGGAAACTGCCGAGGCCCATCTGGGCAGAA
GTGTCCGTCAAGCTGTCATTACAGTACCCGCTTATTTCAATGATTCCCAGCGCCAAGCGACAAAAGATGCTGGACGTATT
GCTGGATTGGAGGTATTACGTATCATCAACGAACCTACGGCTGCTGCCTTGGCATTTGGTCTGGAAAAAAATGATGGAAA
GACAATCGCCGTTTATGATTTGGGCGGGGGCACTTTTGACATATCAATTTTAGAAATTTTGGGGGGTGTATTTGAAGTGA
AAGCCACCAATGGCAATACCTCTCTTGGGGGGGAGGACTTTGACCAAAGAATTTTGCAGTATTTAATATCAGAGTTTAAA
AAAAAGCAAGGAATCGATTTAAAAAAAGACAAATTGGCACTGCAGCGTCTGAGGGAAGCGGCGGAAACTGCAAAAATCGA
ACTTTCTACTAAAACACAAACTGAAATAAATCTTCCATTCATAACAGCAGATCAGTCAGGCCCTAAACATCTACAAATAA
AATTAATGCGCGCGAAGCTGGAGGAGATTTGCGAGGATTTGTTACAAGGAACGGTGGCACCGTGTGAAAAATGTATGAAG
GATGCTTCAGTTACGGCAAGGGAATTGAATGATGTAATTTTGGTTGGAGGTATGACACGGATGCCAAGGGTGAGCGATAT
TGTTCGTAAAATTTTCGGTAAAGATGCTTCGAAATCTGTCAATCCCGATGAAGCGGTTGCCATGGGCGCTGCTATACAAG
CCGGTGTCCTAAAAGGAGAGATCAAGGATTTGTTGCTACTGGATGTCTGTCCTCTTTCTCTTGGAATTGAAACTCTAGGA
GGTGTTTTCACGCGACTAATTAACAGAAATACAACAATTCCAACAAAGAAATCCCAAGTGTTTTCAACCGCTGCTGATAA
TCAAACCCAGGTTGGTATTAAGGTTTTCCAGGGAGAACGTGGTATGGCTGCTGATAATCAGATGTTGGGGCAATTTGATT
TGGTTGGCATACCCCCTGCACCCAGG

Alignment

ORF - retro_oana_82 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.19 %
• Parental protein coverage: 75.04 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KGAVIGIDLGTTNSCVAVMEGKQAKVLENAEGARTTPSVVAFAADGERLVGMPAKRQAVTNPNNTFYATK
          .G.V.GIDLGTTNSCVAVME....KV.ENAEG.RTTPS.VAF..DG.RLVG..AKRQAVTNP.NT..ATK
Retrocopy QGDVVGIDLGTTNSCVAVMENSIPKVIENAEGMRTTPSIVAFTDDGQRLVGVVAKRQAVTNPENTVFATK

Parental  RLIGRRYDDSEVQKDIKNVPFKIVRSSNGDAWVEAHGKLYSPSQIGAFVLMKMKETAENYLGHAAKNAVI
          R.IGR..DD....K.....P.KIVR.SNGDAW.EA.GK.YSPSQIGA.VL.KMKETAE..LG.....AVI
Retrocopy RFIGRSFDDDATRKEQATLPYKIVRASNGDAWIEAQGKQYSPSQIGACVLTKMKETAEAHLGRSVRQAVI

Parental  TVPAYFNDSQRQATKDAGQIAGLNVLRVINEPTAAALAYGLDKSEDKVIAVYDLGGGTFDISVLEIQKGV
          TVPAYFNDSQRQATKDAG.IAGL.VLR.INEPTAAALA.GL.K...K.IAVYDLGGGTFDIS.LEI..GV
Retrocopy TVPAYFNDSQRQATKDAGRIAGLEVLRIINEPTAAALAFGLEKNDGKTIAVYDLGGGTFDISILEILGGV

Parental  FEVKSTNGDTFLGGEDFDQALLQHIVKEFKRETGVDLMKDNMALQRVREASEKAKCELSSSVQTDINLPY
          FEVK.TNG.T.LGGEDFDQ..LQ....EF....G.DL.KD..ALQR.REA.E.AK.ELS...QT.INLP.
Retrocopy FEVKATNGNTSLGGEDFDQRILQYLISEFXXXQGIDLKKDKLALQRLREAAETAKIELSTKTQTEINLPF

Parental  LTMDASGPKHLNMKLTRAQFENIVANLIKRTVAPCQKAMQDAEVSKSDIGEVILVGGMSRMPKVVQQTVQ
          .T.D.SGPKHL..KL.RA..E.I...L...TVAPC.K.M.DA.V.......VILVGGM.RMP..V...V.
Retrocopy ITADQSGPKHLQIKLMRAKLEEICEDLLQGTVAPCEKCMKDASVTARELNDVILVGGMTRMPR-VSDIVR

Parental  DLFGRAPSKAVNPDEAVAIGAAIQGGVLAGDVTDVLLLDVTPLSLGIETLGGVFTKLINRNTTIPTKKSQ
          ..FG...SK.VNPDEAVA.GAAIQ.GVL.G...D.LLLDV.PLSLGIETLGGVFT.LINRNTTIPTKKSQ
Retrocopy KIFGKDASKSVNPDEAVAMGAAIQAGVLKGEIKDLLLLDVCPLSLGIETLGGVFTRLINRNTTIPTKKSQ

Parental  VFSTAADGQTQVEIKVCQGEREMAADNKLLGQFTLIGIPPAPR
          VFSTAAD.QTQV.IKV.QGER.MAADN..LGQF.L.GIPPAPR
Retrocopy VFSTAADNQTQVGIKVFQGERGMAADNQMLGQFDLVGIPPAPR

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	155.61 RPM
SRP007412_cerebellum	0.00 RPM	211.27 RPM
SRP007412_heart	0.00 RPM	453.06 RPM
SRP007412_kidney	0.00 RPM	169.66 RPM
SRP007412_liver	0.00 RPM	174.84 RPM
SRP007412_testis	0.00 RPM	140.54 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_82 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_82 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000014493	1 retrocopy	retro_dord_304,
Macropus eugenii	ENSMEUG00000016000	1 retrocopy	retro_meug_953,
Ornithorhynchus anatinus	ENSOANG00000002817	1 retrocopy	retro_oana_82 ,
Tupaia belangeri	ENSTBEG00000015361	1 retrocopy	retro_tbel_2365,
Tarsius syrichta	ENSTSYG00000011769	1 retrocopy	retro_tsyr_2147,
Vicugna pacos	ENSVPAG00000006332	1 retrocopy	retro_vpac_524,