RetrogeneDB ID:

retro_dnov_254

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_306:609591..610027(+)
Located in intron of:ENSDNOG00000017027
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NDUFV2
Ensembl ID:ENSDNOG00000017036
Aliases:None
Description:NADH dehydrogenase (ubiquinone) flavoprotein 2, 24kDa [Source:HGNC Symbol;Acc:7717]


Retrocopy-Parental alignment summary:






>retro_dnov_254
ATCAGCAAGGTTGCAGAAGGTTTGCAAGTACTGCCAATGAGAGTATAGGAGGTACAAACGTTTTTTACAACGTGTAATTA
AAGCCAGTTAGACAGTGTTGCATTCAGGTCTGTACTCTTACACCTCACATGCTTGCAGATTCTCACAGTTTACTGAGCCA
TGCCAAAAAGACTTGGAAAACCTTTTAAAAGTTTGAGGAGACTAAACCTGACAAACTATTCACTCTAACAGAGGTGGCCA
GTTTAGGGCCTGTGTAAATGCACCAATGGTTCAAAGAAATCACTACTATGAGAAACTGACACCTAAGGATATTGAAGGTA
CTATTGATGAGCTCAAGGCTGGCAGAATCACAAAACCTAAGCCTAGGTTTTGTGGGCACTTGTCTTGTGAGCCAGCTGGA
GGTCTTTACTCTTTAACTGTGCCATCTAAAGTTCCC

ORF - retro_dnov_254 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.76 %
Parental protein coverage: 61.02 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMNKVAELLQVPPMRVYEVATFYTMYN-RKPVGKYHIQVCTTTPCMLRDSDSILEAIQK--KLGIKVGETT
..KVAE.LQV.PMRV.EV.TF.T..N..KPV....IQVCT.TP.ML.DS.S.L....K..K...K..ET.
RetrocopyISKVAEGLQVLPMRV*EVQTFFTTCN<LKPVRQCCIQVCTLTPHMLADSHSLLSHAKKTWKTF*KFEETK
ParentalPDKLFTLLEVECLG-ACVNAPMVLINDNYYEDLTPKDIEEIIDELKAGKIPKPGPR-NGRFSCEPAGGLT
PDKLFTL.EV..LG.ACVNAPMV..N..YYE.LTPKDIE..IDELKAG.I.KP.PR..G..SCEPAGGL.
RetrocopyPDKLFTLTEVASLG<ACVNAPMVQRN-HYYEKLTPKDIEGTIDELKAGRITKPKPRFCGHLSCEPAGGLY
ParentalSLTEPPKGP
SLT.P.K.P
RetrocopySLTVPSKVP

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 237 .06 RPM
SRP012922_cerebellum 0 .00 RPM 124 .55 RPM
SRP012922_heart 0 .00 RPM 326 .24 RPM
SRP012922_kidney 0 .00 RPM 284 .75 RPM
SRP012922_liver 0 .00 RPM 90 .87 RPM
SRP012922_lung 0 .15 RPM 131 .65 RPM
SRP012922_quadricep_muscle 0 .00 RPM 296 .67 RPM
SRP012922_spleen 0 .00 RPM 111 .37 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_254 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 21 parental genes, and 46 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000074151 retrocopy
Bos taurus ENSBTAG000000048712 retrocopies
Choloepus hoffmanni ENSCHOG000000137141 retrocopy
Cavia porcellus ENSCPOG000000084794 retrocopies
Dasypus novemcinctus ENSDNOG00000017036 1 retrocopy
retro_dnov_254 ,
Dipodomys ordii ENSDORG000000081795 retrocopies
Erinaceus europaeus ENSEEUG000000068181 retrocopy
Homo sapiens ENSG000001781271 retrocopy
Loxodonta africana ENSLAFG000000105202 retrocopies
Macaca mulatta ENSMMUG000000220951 retrocopy
Mustela putorius furoENSMPUG000000047102 retrocopies
Oryctolagus cuniculus ENSOCUG000000098993 retrocopies
Otolemur garnettii ENSOGAG000000101182 retrocopies
Ochotona princeps ENSOPRG000000127882 retrocopies
Procavia capensis ENSPCAG000000062842 retrocopies
Rattus norvegicus ENSRNOG000000425031 retrocopy
Sorex araneus ENSSARG000000118762 retrocopies
Sus scrofa ENSSSCG000000036831 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000162591 retrocopy
Tupaia belangeri ENSTBEG000000154268 retrocopies
Tursiops truncatus ENSTTRG000000024263 retrocopies



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