RetrogeneDB ID: retro_oana_26

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: Contig116909:584..941(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000028534
• Aliases: None
• Description: None

Sequence

>retro_oana_26
GTAACGTGCCAATTACCAGTGGAACAATCAGGAGGAGAAGGAAAATGCTTGTGGATCGACACCGAGGGGACATTTCGTCC
GGAACGTATCGTTGCAATTGCTAAACGGTTTGGTTTGTCGCCAGCGGATTGCTTGGATAACATCGCGTACGCTAAAGCCT
ACAACAGTGATCATCAACTGGAGTTGCTGGTACAAGCAACCGCAATGATAGCTGAGACACGATTCGCCTTGTTGATTGTG
GATAGTGCCACTGCGTTGTATAGGTCGGATTATCTCGGACGTGGAGAACTCGCAAACAGGCAGATGCACCTGTGTAGGGT
GCGGAGGGGACTCCAAAAAATCGCAGACACTTTTGGG

Alignment

ORF - retro_oana_26 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.55 %
• Parental protein coverage: 55.09 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARGFNTDHQTQLLYQASAMM
          VTCQLP....GGEGK...IDTEGTFRPER..A.A.R.GLS..D.LDN.AYA...N.DHQ..LL.QA.AM.
Retrocopy VTCQLPVEQSGGEGKCLWIDTEGTFRPERIVAIAKRFGLSPADCLDNIAYAKAYNSDHQLELLVQATAMI

Parental  VESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEVG
          .E.R.ALLIVDSATALYR.DY.GRGEL..RQMHL.R..R.L...AD..G
Retrocopy AETRFALLIVDSATALYRSDYLGRGELANRQMHLCRVRRGLQKIADTFG

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	1.77 RPM
SRP007412_cerebellum	0.00 RPM	13.15 RPM
SRP007412_heart	0.00 RPM	4.60 RPM
SRP007412_kidney	0.00 RPM	0.59 RPM
SRP007412_liver	0.00 RPM	0.45 RPM
SRP007412_testis	0.00 RPM	4.51 RPM

ChIP-Seq

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_oana_26 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_26 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020821	2 retrocopies	retro_cjac_2811, retro_cjac_430,
Ornithorhynchus anatinus	ENSOANG00000028534	1 retrocopy	retro_oana_26 ,
Otolemur garnettii	ENSOGAG00000031397	1 retrocopy	retro_ogar_3425,