RetrogeneDB ID: retro_dnov_1679

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_2647:138580..138900(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000015368
• Aliases: None
• Description: None

Sequence

>retro_dnov_1679
CTCGTGTACCGGGCGCTGCTCTCTGTCCTGGATGATCACGATGTGGATTCTTTCATCTCCCTCTCCTCTTCAGGGATGGA
ACATATGGAGACACAGACTATTTGAAGTGGCTGTTCCCCACCTCCATGCGCTCTAAGGTCTGCGGTATCTGCTGTAGCCC
CTGGGACCAGGATTTCGCCATCCAAAACTACTGGCATGACCCCCACTATGATGTCTTGTACCTCAACGCCAGCAGCTTCC
TGGCCCTGATCAATGGGGAAAGAGACCATCCCAACCCTACCGCATGACTGAAGAACTTTCTCCACGTGGGCCGCCTGGTG

Alignment

ORF - retro_dnov_1679 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.63 %
• Parental protein coverage: 56.61 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LVCRALLSVMDDHNVDSFISLSSPQM-GQYGDTDYLKWLFPTSMRSNLYRICYSPWGQEFSICNYWHDPH
          LV.RALLSV.DDH.VDSFISLSS..M.G.YGDTDYLKWLFPTSMRS....IC.SPW.Q.F.I.NYWHDPH
Retrocopy LVYRALLSVLDDHDVDSFISLSSSGM<GTYGDTDYLKWLFPTSMRSKVCGICCSPWDQDFAIQNYWHDPH

Parental  HDDLYLNASSFLALINGERDHPNATAWRKNFLRVGRLV
          .D.LYLNASSFLALINGERDHPN.TA..KNFL.VGRLV
Retrocopy YDVLYLNASSFLALINGERDHPNPTA*LKNFLHVGRLV

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	0.19 RPM	9.33 RPM
SRP012922_cerebellum	0.00 RPM	25.84 RPM
SRP012922_heart	0.00 RPM	12.76 RPM
SRP012922_kidney	0.00 RPM	22.18 RPM
SRP012922_liver	0.00 RPM	14.40 RPM
SRP012922_lung	0.00 RPM	20.16 RPM
SRP012922_quadricep_muscle	0.00 RPM	26.65 RPM
SRP012922_spleen	0.00 RPM	23.46 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_1679 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000015368	1 retrocopy	retro_dnov_1679 ,
Tarsius syrichta	ENSTSYG00000002885	1 retrocopy	retro_tsyr_1682,