RetrogeneDB ID: retro_oana_17

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: 4:22130845..22131141(+)
• 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_17
TGCACAATAATACAGGGCCGTGTCCTCGGTTTTCAGGCTGATCATTTGCAGATGCAGCAAGCTGTTGGCATTATCCCTGG
AGATGGTAAATCTGTCTTTCACTGATGAGGCATATTCTGTAGTTTGTGAATGTACTTGGTTACGTATCACAGCGACCCAC
TCCAGCCCCTTCCCCAGAGCCTGGCAGAACCAGTACTTGCAGTAGTCACTGAAGGTGAATCCCGAGGCTTTACAAAAGAG
GCACAGAGACCCCTTTGGGCTGTTTCATGTCTCCCCCAGACTCCACCAACTGGTCC

Alignment

ORF - retro_oana_17 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.49 %
• Parental protein coverage: 92.52 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  CTVIEGRVFGFQAVHLQIQQAVGVVPGNGELAFHRVWIACAAPIATFVSMYATHSSPFP-GVWRTQLIAQ
          CT.I.GRV.GFQA.HLQ.QQAVG..PG.G...FH...I.C.......V........P.P...W..Q....
Retrocopy CTIIQGRVLGFQADHLQMQQAVGIIPGDGKSVFH**GIFCSL*M-YLVTYHSDPLQPLP>RAWQNQYLQ*

Parental  LLKVNPEALQERLRD-PPGCLKSPPDSTSWT
          .LKVNPEALQ.R.RD.P.GC..SPPDST.W.
Retrocopy SLKVNPEALQKRHRD>PLGCFMSPPDSTNWS

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	0.00 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_17 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_17 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,