RetrogeneDB ID: retro_dnov_244

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_2940:1978..2305(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000024143
• Aliases: None
• Description: None

Sequence

>retro_dnov_244
GGCTCGGGGGACGCCGAACGGGCCGCGCTCGCCCTAGCGTCGGGTGGAGCCGCTGCGCCCGCGGCTAGAGGGCCGGAAGG
CGCGCTGCACAACTTCGCCCTCAGCGTGCCTTTCCCGACCCCCCTGGAGGCGGAGATCGCCTGCGGATCCCTGGCCCCAG
ATGGCGAGCCCCACCGAGCAGCGATCCAGAAGGAGCTGACCGTGGCTGGCGGCGTCCTGGCCGTCCGATGGACTGCTGAA
GATCCTCGCCTCCTCCGAATTTCCATCACGAACTTTCTCGACCAGCTTTCCCTGGTGGTGCGGACCATGCAGCGCTTCGG
GCCCCCC

Alignment

ORF - retro_dnov_244 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.05 %
• Parental protein coverage: 78.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GAPQAARAPHAPGSGGDAVPVAGGAGSRLLTFTLMVPFGSALEAEMACSSLMPDIHRQGQAVQKEITVNG
          G...A.RA..A..SGG.A.P.A.G....L..F.L.VPF...LEAE.AC.SL.PD......A.QKE.TV.G
Retrocopy GSGDAERAALALASGGAAAPAARGPEGALHNFALSVPFPTPLEAEIACGSLAPDGEPHRAAIQKELTVAG

Parental  SVLAVRWTAEDLGILRISINTFCNQLSLIVWNIQRIGLP
          .VLAVRWTAED...LRISI..F..QLSL.V...QR.G.P
Retrocopy GVLAVRWTAEDPRLLRISITNFLDQLSLVVRTMQRFGPP

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	9.72 RPM	0.00 RPM
SRP012922_cerebellum	3.99 RPM	0.00 RPM
SRP012922_heart	2.78 RPM	0.00 RPM
SRP012922_kidney	20.81 RPM	0.00 RPM
SRP012922_liver	6.66 RPM	0.00 RPM
SRP012922_lung	8.25 RPM	0.00 RPM
SRP012922_quadricep_muscle	4.50 RPM	0.00 RPM
SRP012922_spleen	8.93 RPM	0.00 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_244 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 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000024143	1 retrocopy	retro_dnov_244 ,
Dipodomys ordii	ENSDORG00000009093	1 retrocopy	retro_dord_448,
Homo sapiens	ENSG00000196976	1 retrocopy	retro_hsap_4244,
Gorilla gorilla	ENSGGOG00000013507	1 retrocopy	retro_ggor_2845,
Macaca mulatta	ENSMMUG00000007739	1 retrocopy	retro_mmul_1145,
Mus musculus	ENSMUSG00000015289	2 retrocopies	retro_mmus_1411, retro_mmus_1665,
Nomascus leucogenys	ENSNLEG00000014285	1 retrocopy	retro_nleu_1373,
Ochotona princeps	ENSOPRG00000003778	2 retrocopies	retro_opri_196, retro_opri_549,
Pongo abelii	ENSPPYG00000020881	1 retrocopy	retro_pabe_3394,
Rattus norvegicus	ENSRNOG00000037249	1 retrocopy	retro_rnor_595,
Sus scrofa	ENSSSCG00000025528	1 retrocopy	retro_sscr_94,