RetrogeneDB ID:

retro_dnov_486

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_521:33090..33428(+)
Located in intron of:ENSDNOG00000014103
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NDUFB4
Ensembl ID:ENSDNOG00000024123
Aliases:None
Description:NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 4, 15kDa [Source:HGNC Symbol;Acc:7699]


Retrocopy-Parental alignment summary:






>retro_dnov_486
CTGATGACCCTGCCCACTATTCTCGACCCAAACCAATATGACTTATCTCGAGAAACCCAGCAGAGCCAAGCCAAGCAGCT
CACCTTAAGACCCTGGCTTAAGCGGGAAAACCTGCTCACGTCCAGTGAGCCCAGCCTCTGAGGGCTCATCCAAGACCCTG
CCATGATTTGTAGGACCCACATGAGACAGCAAAGGTCTACCTCGATTTCAGACTTACTCCCAATGTGCGGAGCTCTTTTG
GGATTGGGCCCCTCTTCTGGTATTATGTTTTCAAAAGTGACAGAGATAGGAAAGAAAAACTCATCCAAGAAGGAAAATTG
GACAAAACCTTTAACATC

ORF - retro_dnov_486 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 53.39 %
Parental protein coverage: 90.7 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalLATLPTTLNPAEYDIFPETRRAEAERLAIRSRLKREYLLQYNDPSRRGLIEDPALLRWTYAR-SANIYPN
L.TLPT.L.P..YD...ET....A..L..R..LKRE.LL....PS..GLI.DPA....T..R..A..Y..
RetrocopyLMTLPTILDPNQYDLSRETQQSQAKQLTLRPWLKRENLLTSSEPSL*GLIQDPAMICRTHMR<TAKVYLD
ParentalFRPTPKSSFLGAVFGIGPLFFWYYIIKTDRDRKEKLIQEGKFDRTGSI
FR.TP........FGIGPLF.WYY..K.DRDRKEKLIQEGK.D.T..I
RetrocopyFRLTPN---VRSSFGIGPLF-WYYVFKSDRDRKEKLIQEGKLDKTFNI

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 77 .20 RPM
SRP012922_cerebellum 0 .00 RPM 68 .05 RPM
SRP012922_heart 0 .00 RPM 173 .10 RPM
SRP012922_kidney 0 .00 RPM 123 .21 RPM
SRP012922_liver 0 .00 RPM 79 .73 RPM
SRP012922_lung 0 .00 RPM 36 .81 RPM
SRP012922_quadricep_muscle 0 .00 RPM 159 .58 RPM
SRP012922_spleen 0 .00 RPM 37 .54 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_486 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 26 parental genes, and 76 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000114621 retrocopy
Ailuropoda melanoleuca ENSAMEG000000047612 retrocopies
Bos taurus ENSBTAG000000158922 retrocopies
Choloepus hoffmanni ENSCHOG000000000062 retrocopies
Callithrix jacchus ENSCJAG000000086954 retrocopies
Danio rerio ENSDARG000000193321 retrocopy
Dasypus novemcinctus ENSDNOG00000024123 4 retrocopies
Homo sapiens ENSG000000655186 retrocopies
Gorilla gorilla ENSGGOG000000139232 retrocopies
Loxodonta africana ENSLAFG000000214591 retrocopy
Microcebus murinus ENSMICG000000052264 retrocopies
Myotis lucifugus ENSMLUG000000279513 retrocopies
Macaca mulatta ENSMMUG000000015924 retrocopies
Monodelphis domestica ENSMODG000000182291 retrocopy
Mustela putorius furoENSMPUG000000082721 retrocopy
Mus musculus ENSMUSG000000228204 retrocopies
Nomascus leucogenys ENSNLEG000000077064 retrocopies
Otolemur garnettii ENSOGAG000000059565 retrocopies
Pongo abelii ENSPPYG000000135033 retrocopies
Pan troglodytes ENSPTRG000000152706 retrocopies
Rattus norvegicus ENSRNOG000000027213 retrocopies
Sorex araneus ENSSARG000000124821 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000200923 retrocopies
Tarsius syrichta ENSTSYG000000064567 retrocopies
Tursiops truncatus ENSTTRG000000166581 retrocopy
Vicugna pacos ENSVPAG000000037741 retrocopy



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