RetrogeneDB ID: retro_dnov_62

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_1177:250517..250723(+)
• Located in intron of: ENSDNOG00000017963

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000017533
• Aliases: None
• Description: None

Sequence

>retro_dnov_62
TGTGCATCCCCCTGTGCGGCCGCTGCAGGAACCTGGGGTCCCTGAAGGCCGGGCCGCCCTTCCCCGGGCCCGCCGTGGGT
CGCATGCAAACCCGAGAGAGTTGGGTCACAGACTCACTGCAGGATTTTGAAGACTGCAGCATCCCATCATGAGGTGTAAG
GTTACAACTCTGAAGGGGGTCCCCAATGTGATTCACCAAGGACTCT

Alignment

ORF - retro_dnov_62 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.86 %
• Parental protein coverage: 69.15 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  CPSACLSRRANAGAWGPRRPGRPSP-ARRGC-VQTRESWVTDSLQAIEDCSIPS----LQL-RGSPM-ST
          C.S.C....A.AG.WGP.RPGRPSP.ARRG...QTRESWVTDSLQ..EDCSIPS....LQL.RGSPM..T
Retrocopy CASPCA---AAAGTWGP*RPGRPSP>ARRGS>MQTRESWVTDSLQDFEDCSIPS*GVRLQL*RGSPM*FT

Parental  KDS
          KDS
Retrocopy KDS

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
SRP012922_ascending_colon	0.97 RPM	23.92 RPM
SRP012922_cerebellum	0.69 RPM	23.37 RPM
SRP012922_heart	0.46 RPM	22.97 RPM
SRP012922_kidney	0.55 RPM	19.44 RPM
SRP012922_liver	0.15 RPM	6.19 RPM
SRP012922_lung	1.07 RPM	44.75 RPM
SRP012922_quadricep_muscle	1.04 RPM	12.46 RPM
SRP012922_spleen	0.69 RPM	43.15 RPM

ChIP-Seq

Dasypus novemcinctus was not studied using ChIP-Seq data.

EST

Dasypus novemcinctus was not studied using EST data.

TSS

Dasypus novemcinctus was not studied using FANTOM5 data.

Lab

retro_dnov_62 was not experimentally validated.

Homology

Retrocopy orthology:

Dasypus novemcinctus 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
Dasypus novemcinctus	ENSDNOG00000017533	1 retrocopy	retro_dnov_62 ,