RetrogeneDB ID: retro_dnov_633

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_7036:603984..604356(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DPH5
• Ensembl ID: ENSDNOG00000006658
• Aliases: None
• Description: diphthamide biosynthesis 5 [Source:HGNC Symbol;Acc:24270]

Sequence

>retro_dnov_633
GCGACTACTCATACAGACTTGGTTCTCAGAGCAAAAGAATTGGGAATCAAATATGAGTCCATTCACAATGCTTCTGTGAT
GAACGCAGTTGGTGCATGTGGCTTGCAGTTGTATCAATTTGGACAAACTGTGTCTTTGGTGTTTTTCACTGAAACTTGGA
AGCCAGATTCGTTCTATGCTAAAATCATGGAGAATAGAAAGATTGGCTTGCACACTTTATTGTTGTTGGATATCAAAGTT
AAGGAGCAAAGCATCGAAAACATGGCTAGAGGAAGATTGATCTATGAGCCACCAAGATACATGGACATTCTGACTGCAGC
CAAACAGTTACTTGAAATCGAAGAAATCAGAAAAGAACAGGCTTACACTCCC

Alignment

ORF - retro_dnov_633 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.65 %
• Parental protein coverage: 58.77 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ATTHSDLVLRATKLGIPYRVIHNASIMNAVGCCGLQLYNFGETVSIVFWTDTWRPESFFDKVKKNRQNGM
          ATTH.DLVLRA..LGI.Y..IHNAS.MNAVG.CGLQLY.FG.TVS.VF.T.TW.P.SF..K...NR..G.
Retrocopy ATTHTDLVLRAKELGIKYESIHNASVMNAVGACGLQLYQFGQTVSLVFFTETWKPDSFYAKIMENRKIGL

Parental  HTLCLLXXXXXXXXXXXXXXGRKIYEPPRFMSVNQAAQQLLEIVQNQRIRGEEP
          HTL.LL..............GR.IYEPPR.M....AA.QLLEI..........P
Retrocopy HTLLLLDIKVKEQSIENMARGRLIYEPPRYMDILTAAKQLLEIEEIRKEQAYTP

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	4.28 RPM
SRP012922_cerebellum	0.00 RPM	7.97 RPM
SRP012922_heart	0.00 RPM	4.41 RPM
SRP012922_kidney	0.00 RPM	4.38 RPM
SRP012922_liver	0.00 RPM	2.63 RPM
SRP012922_lung	0.00 RPM	4.73 RPM
SRP012922_quadricep_muscle	0.00 RPM	2.08 RPM
SRP012922_spleen	0.00 RPM	7.21 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_633 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000019995	1 retrocopy	retro_cfam_504,
Dasypus novemcinctus	ENSDNOG00000006658	1 retrocopy	retro_dnov_633 ,
Tursiops truncatus	ENSTTRG00000010835	1 retrocopy	retro_ttru_1651,