RetrogeneDB ID:

retro_dnov_2291

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_61308:3684..3986(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HSPE1
Ensembl ID:ENSDNOG00000013246
Aliases:None
Description:heat shock 10kDa protein 1 (chaperonin 10) [Source:HGNC Symbol;Acc:5269]


Retrocopy-Parental alignment summary:






>retro_dnov_2291
GCAGGACAGGCATTTAGAAAGTTTCTTCCCCTCTTTGACCCATTGTTGGTTGAAAGGAATGCAGCCAAAACTGAAACCAA
AAGAGGCATTATGCTTCCAGAAATGTCTCAGGAAAAGTATTGCAGGCAACAGTAGTAGCTGATGGAATGGGATCTAAAGG
TAAGGGTAGAGATATTCAACCAGATAGTGTGAAAGTTGGTGATTAAGTTCTTCTCCCAGAATATGGAGGCACCAAAGTAA
TTCTAGATGATAAGGATTATTTCTGTTTCAGGGATGGTGACAATCTTGGGAATTAGGTAGAC

ORF - retro_dnov_2291 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.43 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalAEQAFRKFMPLFDRVLVERSAAETVTKGGIMLPEKSQ-GKVLQATVVAVGSGSKGKSGDIQPVSVKVGDK
A.QAFRKF.PLFD..LVER.AA.T.TK.GIMLPE.SQ.GKVLQATVVA.G.GSKGK..DIQP.SVKVGD.
RetrocopyAGQAFRKFLPLFDPLLVERNAAKTETKRGIMLPEMSQ<GKVLQATVVADGMGSKGKGRDIQPDSVKVGD*
ParentalVLLPEYGGTKVVLDDKDYFLFRDGDILGKYID
VLLPEYGGTKV.LDDKDYF.FRDGD.LG...D
RetrocopyVLLPEYGGTKVILDDKDYFCFRDGDNLGN*VD

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP012922_ascending_colon 0 .00 RPM 58 .34 RPM
SRP012922_cerebellum 0 .00 RPM 20 .90 RPM
SRP012922_heart 0 .23 RPM 31 .56 RPM
SRP012922_kidney 0 .00 RPM 108 .70 RPM
SRP012922_liver 0 .00 RPM 78 .02 RPM
SRP012922_lung 0 .00 RPM 35 .43 RPM
SRP012922_quadricep_muscle 0 .00 RPM 30 .46 RPM
SRP012922_spleen 0 .00 RPM 62 .84 RPM
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_2291 was not experimentally validated.

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.

Parental genes homology:
Parental genes homology involve 24 parental genes, and 210 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001376918 retrocopies
Bos taurus ENSBTAG000000125894 retrocopies
Canis familiaris ENSCAFG000000108904 retrocopies
Callithrix jacchus ENSCJAG000000040081 retrocopy
Cavia porcellus ENSCPOG000000274743 retrocopies
Dasypus novemcinctus ENSDNOG00000013246 27 retrocopies
Dipodomys ordii ENSDORG0000001107119 retrocopies
Equus caballus ENSECAG000000268741 retrocopy
Erinaceus europaeus ENSEEUG000000050406 retrocopies
Felis catus ENSFCAG000000144559 retrocopies
Homo sapiens ENSG0000011554118 retrocopies
Gorilla gorilla ENSGGOG0000002794417 retrocopies
Loxodonta africana ENSLAFG000000000571 retrocopy
Microcebus murinus ENSMICG0000000014812 retrocopies
Myotis lucifugus ENSMLUG000000008784 retrocopies
Macaca mulatta ENSMMUG000000104911 retrocopy
Oryctolagus cuniculus ENSOCUG000000103601 retrocopy
Otolemur garnettii ENSOGAG0000003443424 retrocopies
Procavia capensis ENSPCAG000000095411 retrocopy
Pongo abelii ENSPPYG000000258761 retrocopy
Pan troglodytes ENSPTRG0000001277417 retrocopies
Rattus norvegicus ENSRNOG000000148686 retrocopies
Sus scrofa ENSSSCG000000160787 retrocopies
Vicugna pacos ENSVPAG000000058058 retrocopies



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