RetrogeneDB ID: retro_oana_24

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: 7:24867752..24868162(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000006510
• Aliases: None
• Description: None

Sequence

>retro_oana_24
ATCTTGACAATAGAAAGATCCAAACCTCTCCCAGAATTCCTTTAGCTGCTCCTTGCCCAGATAACGGGAATGGATTTCAG
GGGAAATGTTACTATTTTTCTGAAGACAAGAGAAACTGGACATCTAGCCAGAGTTTCTGTACCTCCCACGCTGCAGCTCT
CATTGTGATTGACACTTCTTGGGTAATGGATCTGTTGATGTCAGACAAAGGCCCCTGTGACTACTGGACTGGGCTGAGCA
GGGAAGCAGGCCAAGACTGGAAATGGACAAACGGCACCAAATTCACTGGCTGGTTTGAAATTAAAGGAAGAGGAGAATGT
GCTTATCTGAATGATGAAAGAGTTAGCCGTGCCAGAAACTACACAAACAGAAGGTGGATTTGTAGCAAATCTAACTTTTA
TACCAAGAGG

Alignment

ORF - retro_oana_24 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.91 %
• Parental protein coverage: 95.14 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MLAIEKAKPLPEF-PIAAPCPDDWIGFREKCYYFSEDTRNWTSSQSFCSSRSASLTGIDTQREMDLLLRH
          .L.IE..KPLPEF.P.AAPCPD...GF..KCYYFSED.RNWTSSQSFC.S..A.L..IDT...MDLL...
Retrocopy ILTIERSKPLPEF<PLAAPCPDNGNGFQGKCYYFSEDKRNWTSSQSFCTSHAAALIVIDTSWVMDLLMSD

Parental  KGPSDHWIGLSREPGQDWKWTNGTKFTGWFEVKGRGECAYLNDERVSSARSYTDRRWICSKPGFYAQR
          KGP.D.W.GLSRE.GQDWKWTNGTKFTGWFE.KGRGECAYLNDERVS.AR.YT.RRWICSK..FY..R
Retrocopy KGPCDYWTGLSREAGQDWKWTNGTKFTGWFEIKGRGECAYLNDERVSRARNYTNRRWICSKSNFYTKR

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	0.09 RPM	1.77 RPM
SRP007412_cerebellum	0.05 RPM	1.87 RPM
SRP007412_heart	0.09 RPM	2.48 RPM
SRP007412_kidney	0.59 RPM	3.26 RPM
SRP007412_liver	0.18 RPM	20.79 RPM
SRP007412_testis	0.24 RPM	2.61 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_24 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_24 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Ornithorhynchus anatinus	ENSOANG00000006510	1 retrocopy	retro_oana_24 ,