RetrogeneDB ID:

retro_dnov_651

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_728:290491..290754(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CMC1
Ensembl ID:ENSDNOG00000018923
Aliases:None
Description:COX assembly mitochondrial protein 1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:28783]


Retrocopy-Parental alignment summary:






>retro_dnov_651
AAACCTTTAACCCCTCCCCCTGTCCGGGAGCTGCTGAGCAGCTACCACTTTCTCCTCCCACAGAGATGGCGCTCAACCCC
ACAGAACAGACATCTTAGAAATGTCGAAAAAGATGTTTTGATCCCTAAATAAAGAGCGAGAAGGTCAGAGAGAGGTGTTC
TGAACAAGGTCAAGATTTTACTAAGTATTGCAAGGACTCTGGACTCCTTACGGTAGTAAAATGCAGGAAAGAAAATTCTG
CACTCAAAGAATGTCTGACTGCT

ORF - retro_dnov_651 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.12 %
Parental protein coverage: 55. %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalRPLPSPP-CPGAAERLSLAPPAEMALDPAEQ-HLRHVEKDVLIPK-IMREKARERCSEQVQDFTKCCKDS
.PL..PP.CPGAAE.L.L.PP.EMAL.P.EQ.HLR.VEKDVLIPK.I..EK.RERCSEQ.QDFTK.CKDS
RetrocopyKPLTPPP<CPGAAEQLPLSPPTEMALNPTEQ>HLRNVEKDVLIPK<IKSEKVRERCSEQGQDFTKYCKDS
ParentalGLLMVVKCRKENSALKECLTA
GLL.VVKCRKENSALKECLTA
RetrocopyGLLTVVKCRKENSALKECLTA

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 21 .78 RPM
SRP012922_cerebellum 0 .00 RPM 11 .41 RPM
SRP012922_heart 0 .00 RPM 8 .12 RPM
SRP012922_kidney 0 .00 RPM 15 .61 RPM
SRP012922_liver 0 .00 RPM 7 .59 RPM
SRP012922_lung 0 .00 RPM 10 .08 RPM
SRP012922_quadricep_muscle 0 .00 RPM 7 .27 RPM
SRP012922_spleen 0 .00 RPM 8 .47 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_651 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 15 parental genes, and 39 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000042722 retrocopies
Dasypus novemcinctus ENSDNOG00000018923 2 retrocopies
retro_dnov_111, retro_dnov_651 ,
Homo sapiens ENSG000001871184 retrocopies
Gorilla gorilla ENSGGOG000000124064 retrocopies
Microcebus murinus ENSMICG000000117022 retrocopies
Myotis lucifugus ENSMLUG000000000442 retrocopies
Nomascus leucogenys ENSNLEG000000040664 retrocopies
Oryctolagus cuniculus ENSOCUG000000127932 retrocopies
Ochotona princeps ENSOPRG000000094741 retrocopy
Pongo abelii ENSPPYG000000140544 retrocopies
Pan troglodytes ENSPTRG000000147064 retrocopies
Rattus norvegicus ENSRNOG000000101491 retrocopy
Sorex araneus ENSSARG000000016291 retrocopy
Tupaia belangeri ENSTBEG000000025734 retrocopies
Tarsius syrichta ENSTSYG000000113712 retrocopies



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