RetrogeneDB ID:

retro_dnov_263

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_3123:333..541(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSDNOG00000005868
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_dnov_263
TCCACCGCCACCTTGGGCATGCAGGTGGAGACCACCTCCCTGGACCCGGGCACACCTTCCCGAAGTGCGGCCAGACCTGC
GTGGCGCACTACACGGGGATGCTTGAAGATGGAAAGAAATTTGGTTCCTCTTGGGACAGAAACAAGCCCTTTAAATTTAC
ACTAGGCAGCAGGAGGTGATCTGAGGCTGGGAAGAAGGGGTTGCCCAG

ORF - retro_dnov_263 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.17 %
Parental protein coverage: 72.16 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalSAAAMGVQVETIS-PGDGRTFPKRGQTCVVHYTGMLEDGKKFDSSRDRNKPFKFTLG-KQEVIRGWEEGV
S.A..G.QVET.S.PG.G.TFPK.GQTCV.HYTGMLEDGKKF.SS.DRNKPFKFTLG..QEVI.GWEEGV
RetrocopySTATLGMQVETTS<PGPGHTFPKCGQTCVAHYTGMLEDGKKFGSSWDRNKPFKFTLG<QQEVI*GWEEGV
ParentalAQ
AQ
RetrocopyAQ

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 1 .17 RPM 31 .89 RPM
SRP012922_cerebellum 0 .27 RPM 14 .57 RPM
SRP012922_heart 0 .23 RPM 10 .67 RPM
SRP012922_kidney 0 .27 RPM 12 .32 RPM
SRP012922_liver 0 .31 RPM 11 .15 RPM
SRP012922_lung 2 .44 RPM 27 .49 RPM
SRP012922_quadricep_muscle 0 .87 RPM 10 .56 RPM
SRP012922_spleen 1 .49 RPM 38 .92 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_263 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
Bos taurus ENSBTAG000000083034 retrocopies
Ciona savignyi ENSCSAVG000000068591 retrocopy
Dasypus novemcinctus ENSDNOG000000046781 retrocopy
Dasypus novemcinctus ENSDNOG00000005868 16 retrocopies
Dasypus novemcinctus ENSDNOG000000112441 retrocopy
Homo sapiens ENSG000000888321 retrocopy
Gorilla gorilla ENSGGOG000000017293 retrocopies
Macaca mulatta ENSMMUG000000159961 retrocopy
Monodelphis domestica ENSMODG000000195542 retrocopies
Mus musculus ENSMUSG000000329661 retrocopy
Procavia capensis ENSPCAG000000088162 retrocopies
Rattus norvegicus ENSRNOG000000088221 retrocopy
Sus scrofa ENSSSCG000000071881 retrocopy
Tursiops truncatus ENSTTRG000000035473 retrocopies
Vicugna pacos ENSVPAG000000115111 retrocopy



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