RetrogeneDB ID: retro_dnov_13

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_257701:691..1051(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDNOG00000004882
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000024482
• Aliases: None
• Description: None

Sequence

>retro_dnov_13
ACGGTAAAGATGACAAAGTCCAAGACGTTTCAAGCCTACCTGCCACACTGTTACCGCACCTACAGCTGCATCCACTGCAG
GGCGCACCTGGCCAACCACGACGAGCTGATCTCCAAGTCCTTTCAGGGAAGTCAGGGACGAGCCTACCTCTTCAATTCTG
TGGTGAACGTGGGCTGTGGCCCAGCAGAGGAGAGGGTCCTCCTCACAGGTTTACACGCTGTCTCAGACATCTACTGTGAA
AACTGCAAAACCACTCTTGGTTGGAAATATGAACATGCCTTTGAGAGCAGTCAGAAATATAAGGAAGGAAAATTTATTAT
TGAGTTTGCCCACATGATCAAAGACAATGGTTGGGAGTAG

Alignment

ORF - retro_dnov_13 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.46 %
• Parental protein coverage: 99.16 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VKMTKSKTFQAYLPHCHRTYSCIHCRAHLANHDELISKSFQGSQGRAYLFNSVVNVGCGPAEERVLLTGL
          VKMTKSKTFQAYLPHC.RTYSCIHCRAHLANHDELISKSFQGSQGRAYLFNSVVNVGCGPAEERVLLTGL
Retrocopy VKMTKSKTFQAYLPHCYRTYSCIHCRAHLANHDELISKSFQGSQGRAYLFNSVVNVGCGPAEERVLLTGL

Parental  HAVADIYCENCKTTLGWKYEHAFESSQKYKEGKFIIELAHMIKDNGWE
          HAV.DIYCENCKTTLGWKYEHAFESSQKYKEGKFIIE.AHMIKDNGWE
Retrocopy HAVSDIYCENCKTTLGWKYEHAFESSQKYKEGKFIIEFAHMIKDNGWE

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	0.00 RPM	1.56 RPM
SRP012922_cerebellum	0.00 RPM	2.06 RPM
SRP012922_heart	0.00 RPM	0.46 RPM
SRP012922_kidney	0.00 RPM	0.55 RPM
SRP012922_liver	0.00 RPM	0.77 RPM
SRP012922_lung	0.00 RPM	3.51 RPM
SRP012922_quadricep_muscle	0.00 RPM	1.38 RPM
SRP012922_spleen	0.00 RPM	3.20 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_13 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000001397	1 retrocopy	retro_acar_93,
Callithrix jacchus	ENSCJAG00000015755	1 retrocopy	retro_cjac_597,
Dasypus novemcinctus	ENSDNOG00000024482	1 retrocopy	retro_dnov_13 ,
Echinops telfairi	ENSETEG00000008187	1 retrocopy	retro_etel_1965,
Pteropus vampyrus	ENSPVAG00000013638	1 retrocopy	retro_pvam_162,
Tursiops truncatus	ENSTTRG00000016725	1 retrocopy	retro_ttru_1895,