RetrogeneDB ID: retro_oana_30

Retrocopy location

• Organism: Platypus (Ornithorhynchus anatinus)
• Coordinates: Contig137672:16..630(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOANG00000019682
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOANG00000008375
• Aliases: None
• Description: None

Sequence

>retro_oana_30
CAGATCATGGTCAACCACACCACAGTGATGGAATTCCTTCTTCTGGGGTTCTCAGAGGTCCGGGAGCTGCAGCTGGTCCA
CGCCGTGCTGTTCTTCCTGCTCTACCTGGTTGCCCTGACGGGGAATCTCCTCATCGCTGCCATCACCACCCTTGACTGGC
ACCTCCACAACCCCATGTACTTTTTCCTCAGGCACCTGTCCATCCTCGACCTCTGCCTCATCTCCGTCACCCTCCCCAAG
TCCAACCTGGTCTCTCTGACCACCTGCTACTCCATCTCCTTTCTGGATTGTTGTTTGCAAGTCCTTCTGGTGCTTTTGTT
TGCCACTTCAGAGCTGTTCATCCTCACGGCCATGTCCTACAACCATAACACCGCCACCTGCCACCCTTTGCGCTAGGAGG
TCATCATGGCCCAAGGAGCCTGTGGGAAGATGGCGGCCACTTCCTGGCTCAGCAAATACCTCCTTGGAGCATCCTCTCAG
CTGGTGCATTATCCTTGCCCATCTGTGGGTCCCTTGAGATCCAAGCCCCTTCTGGGCCGTCCTTTCCTGGAGCAGATATC
TGTTGGGCCGAACACACAACCCTTGATTTAACTGTAGCCACTGGATTATGTTTG

Alignment

ORF - retro_oana_30 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.38 %
• Parental protein coverage: 65.38 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QIMVNHTTVMEFLLLGFSEVRELQLVHAVLFLLLYLVALTGNVLIVAITTLDWHLHTPTYLFLRHLSILD
          QIMVNHTTVMEFLLLGFSEVRELQLVHAVLF.LLYLVALTGN.LI.AITTLDWHLH.P.Y.FLRHLSILD
Retrocopy QIMVNHTTVMEFLLLGFSEVRELQLVHAVLFFLLYLVALTGNLLIAAITTLDWHLHNPMYFFLRHLSILD

Parental  L--ISVTLPKSILVSLTTCHSISFLDCCLQVLLVLLFATSERFILTAMSYDRYTAICHPLRLKVIMAQGA
          L..ISVTLPKS.LVSLTTC.SISFLDCCLQVLLVLLFATSE.FILTAMSY...TA.CHPLR..VIMAQGA
Retrocopy LCLISVTLPKSNLVSLTTCYSISFLDCCLQVLLVLLFATSELFILTAMSYNHNTATCHPLR*EVIMAQGA

Parental  CGKMAATSWLSRCLLGAS-LSAGALSL-PICGPREIQQIFRDIPSLLKIS-CSEEHTTLDLTVAIGFCL
          CGKMAATSWLS..LLGAS.LSAGALSL.P..GP..........P.L..IS.C..EHTTLDLTVA.G.CL
Retrocopy CGKMAATSWLSKYLLGAS<LSAGALSL>PSVGPLRSKPLLGR-PFLEQIS<CWAEHTTLDLTVATGLCL

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	0.00 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_30 retrocopy.

TSS

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab

retro_oana_30 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Ornithorhynchus anatinus	ENSOANG00000008375	3 retrocopies	retro_oana_29, retro_oana_30 , retro_oana_48,