RetrogeneDB ID:

retro_dnov_255

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_3062:703077..703703(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HPRT1
Ensembl ID:ENSDNOG00000008495
Aliases:None
Description:hypoxanthine phosphoribosyltransferase 1 [Source:HGNC Symbol;Acc:5157]


Retrocopy-Parental alignment summary:






>retro_dnov_255
ATTAGCAAAGATGAACCAGGTTATGACCTAATTCATTTTGTATACCTAATCATTATGCTGAAGATTTGGAAAGGGCATTT
ATTCCTCATGGACTAATTATGGACAGAACCAAATGGCTTGCTCGAGATGTGATGAAGGAGATGGGAGGCCACCACATCAT
AGCCCTCTGTGTGCTCAAGGGGGGCTATAAATTCTTTGCCGACTTACTGGATTACATCAAAGCACTGAACAGAAATAGCG
ATAGATCCATTCCTATGACTGTAGATTTTATCAGACTAAAGAGCTACTGTAAAGACCAGTCAACAGGAGACATAAAAGTG
ATTGGTGGAGATGATCTCTCAACTTTAACTGGAAAGAATGTCTTGATTGTTGAAGATATAATTGACACTGGCAAAACAAT
GCAAACCCTGCTTTCCTTGGTCAAGCAGTATAATCCAAAGATGGTCAAGGTTGCAAGCTTACTGGTGAAAAGGACCCCTC
GAAGTGTTGGATATAGACCAGACTTTGTTGGGTTTGAAATTCCAGACAAATTTGTTGTAGGATATGCCCTTGACTATAAT
GAATACCTCAGGGATTTGAATCATGTTTGTGTAATTAGCAAAACCAGAAGAGCAAAATACAAAGCC

ORF - retro_dnov_255 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.43 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalISDDEPGYDL-NLFCIPNHYAEDLERVFIPHGLIMDRTERLARDVMKEMGGHHIVALCVLKGGYKFFADL
IS.DEPGYDL.N.FCIPNHYAEDLER.FIPHGLIMDRT..LARDVMKEMGGHHI.ALCVLKGGYKFFADL
RetrocopyISKDEPGYDL<NSFCIPNHYAEDLERAFIPHGLIMDRTKWLARDVMKEMGGHHIIALCVLKGGYKFFADL
ParentalLDYIKALNRNSDRSIPMTVDFIRLKSYCNDQSTGDIKVIGGDDLSTLTGKXXXXXXDIIDTGKTMQTLLS
LDYIKALNRNSDRSIPMTVDFIRLKSYC.DQSTGDIKVIGGDDLSTLTGK......DIIDTGKTMQTLLS
RetrocopyLDYIKALNRNSDRSIPMTVDFIRLKSYCKDQSTGDIKVIGGDDLSTLTGKNVLIVEDIIDTGKTMQTLLS
ParentalLVKQYNPKMVKVASLLVKRTPRSVGYRPDFVGFEIPDKFVVGYALDYNEYFRDLNHVCVISETGKAKYKA
LVKQYNPKMVKVASLLVKRTPRSVGYRPDFVGFEIPDKFVVGYALDYNEY.RDLNHVCVIS.T..AKYKA
RetrocopyLVKQYNPKMVKVASLLVKRTPRSVGYRPDFVGFEIPDKFVVGYALDYNEYLRDLNHVCVISKTRRAKYKA

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 .78 RPM 9 .14 RPM
SRP012922_cerebellum 2 .34 RPM 24 .06 RPM
SRP012922_heart 0 .70 RPM 12 .99 RPM
SRP012922_kidney 0 .27 RPM 6 .02 RPM
SRP012922_liver 3 .56 RPM 15 .17 RPM
SRP012922_lung 1 .53 RPM 26 .73 RPM
SRP012922_quadricep_muscle 1 .21 RPM 8 .83 RPM
SRP012922_spleen 4 .24 RPM 34 .45 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_255 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 53 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000013391 retrocopy
Bos taurus ENSBTAG000000146853 retrocopies
Canis familiaris ENSCAFG000000188701 retrocopy
Cavia porcellus ENSCPOG000000025121 retrocopy
Dasypus novemcinctus ENSDNOG00000008495 5 retrocopies
Equus caballus ENSECAG000000175341 retrocopy
Felis catus ENSFCAG000000045752 retrocopies
Homo sapiens ENSG000001657041 retrocopy
Gorilla gorilla ENSGGOG000000080501 retrocopy
Loxodonta africana ENSLAFG000000098922 retrocopies
Microcebus murinus ENSMICG000000065471 retrocopy
Myotis lucifugus ENSMLUG000000035911 retrocopy
Macaca mulatta ENSMMUG000000083031 retrocopy
Mustela putorius furoENSMPUG000000126993 retrocopies
Oryctolagus cuniculus ENSOCUG000000031861 retrocopy
Otolemur garnettii ENSOGAG000000038813 retrocopies
Pongo abelii ENSPPYG000000207332 retrocopies
Pan troglodytes ENSPTRG000000222872 retrocopies
Rattus norvegicus ENSRNOG000000313672 retrocopies
Sarcophilus harrisii ENSSHAG000000079653 retrocopies
Tupaia belangeri ENSTBEG000000008595 retrocopies
Tarsius syrichta ENSTSYG000000095791 retrocopy
Tursiops truncatus ENSTTRG000000099549 retrocopies
Vicugna pacos ENSVPAG000000091331 retrocopy



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