RetrogeneDB ID: retro_oana_19

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: 4:21957134..21957450(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000020180
• Aliases: None
• Description: None

Sequence

>retro_oana_19
ATGTGGTTTCTATCACTGTGTGTCTTTTGCACAGTAATACCGGGCTGTGTCGTCAGTTTTCAGGCTGTTCATTTGTAGAT
GCATCAGTCTGTTGGCATTGTCCTTGGAGATGGTGAATCGGCCTTTCACAGAGTCTGCGTAGGTTGGATAGCCCTCATCC
CCTCTTATAGCTGCAACCCATTCCAGCCCCTTCCCGGGAGCCTGCCGGACCCAGTGCATATAGTAGTCTTTGCTGGGGGC
AAATAAGAAGTTTGTACAGGTGAGGCGCAGAGATGCTCCGGGCTGTCTCAAGTCTCCCCCAGACTCCACCAACTGG

Alignment

ORF - retro_oana_19 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.96 %
• Parental protein coverage: 99.07 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MWFYSLC-FCTVIEGRVFGFQAVHLQIQQAVGVVPGNGELAFHRVWIACAAPIATFVSMYATHSSPFP-G
          MWF.SLC.FCTVI.G.V..FQAVHL...Q.VG.V.G.GE.AFHRV...C...IA...S.......P.P.G
Retrocopy MWFLSLCVFCTVIPGCVVSFQAVHL*MHQSVGIVLGDGESAFHRV---CVGWIALIPSYSCNPFQPLP>G

Parental  VWRTQLI-AQLLKVNPEALQERLRDPPGCLKSPPDSTSW
          ..RTQ.I...LL..N....Q.R.RD.PGCLKSPPDST.W
Retrocopy ACRTQCI**SLLGANKKFVQVRRRDAPGCLKSPPDSTNW

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	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.09 RPM	0.18 RPM
SRP007412_testis	0.00 RPM	0.00 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_19 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_19 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Ornithorhynchus anatinus	ENSOANG00000020180	4 retrocopies	retro_oana_15, retro_oana_17, retro_oana_19 , retro_oana_21,