RetrogeneDB ID: retro_oana_101

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: Ultra103:877016..877298(-)
• Located in intron of: ENSOANG00000007875

Retrocopy information

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

Parental gene information

• Parental gene symbol: ox_plat1_83214
• Ensembl ID: ENSOANG00000020441
• Aliases: None
• Description: None

Sequence

>retro_oana_101
CGTCTGAAATGTGTGGAGGAAGTTGCTTTCCAGGAGGAGGGGGTTGCAGTGCTCAAAAAAAAAACCCTGGAAGGAGCTGA
TCATCCTAATCTCTTGTTTTATGGGCCGCCTAGAACTGGGAAAACCTCCACTATTTCGGCAGCTGCTAGGGAACTTTATG
GGTCAGAACTTTTCTGCCAAAGAGTTGTTGAGCTGAATGCATCGAATGAACGTGGAATACAAGTAGTTTGAGAAAAAGTG
AAGACTTTTGCCCAGCTAACTGCAGCAGGAAGCCATTCAGAA

Alignment

ORF - retro_oana_101 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.79 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RPKRVDEVAYQEEVVAVLRRS-LEGADLPNLLFYGPPGTGKTSTILAAARELYGPELFRQRVLELNASDE
          R.K.V.EVA.QEE.VAVL....LEGAD.PNLLFYGPP.TGKTSTI.AAARELYG.ELF.QRV.ELNAS.E
Retrocopy RLKCVEEVAFQEEGVAVLXXXXLEGADHPNLLFYGPPRTGKTSTISAAARELYGSELFCQRVVELNASNE

Parental  RGIQVVREKVKTFAQLTVAGSRSE
          RGIQVV.EKVKTFAQLT.AGS.SE
Retrocopy RGIQVV*EKVKTFAQLTAAGSHSE

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	3.27 RPM
SRP007412_cerebellum	0.00 RPM	2.95 RPM
SRP007412_heart	0.00 RPM	2.57 RPM
SRP007412_kidney	0.00 RPM	0.89 RPM
SRP007412_liver	0.00 RPM	0.36 RPM
SRP007412_testis	0.00 RPM	1.30 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_101 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_101 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Mus musculus	ENSMUSG00000022881	1 retrocopy	retro_mmus_3508,
Ornithorhynchus anatinus	ENSOANG00000020441	1 retrocopy	retro_oana_101 ,
Ictidomys tridecemlineatus	ENSSTOG00000012616	1 retrocopy	retro_itri_263,