RetrogeneDB ID:

retro_dnov_1334

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_1833:173614..173856(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TIPIN
Ensembl ID:ENSDNOG00000003177
Aliases:None
Description:TIMELESS interacting protein [Source:HGNC Symbol;Acc:30750]


Retrocopy-Parental alignment summary:






>retro_dnov_1334
AGATTAATTTCAGAGAGAGGGCTTCCAGCCTTAAGACAGGTGTCGATAAGGCAAAATCCAAAGGTAGGGGTCATGAGGCC
CAAGACTTAAAGATGCGGATCAGACACATGGAGCACTGGGCACATAGATTATTTCCTAAACTGCAGTTTGAGGATTTTAT
TAACAGAGTTGAATACCTGGGAAATGAAAAGGAGGTTCAGACCTGTTTAAAACGAATTCCACTCCATCTCCCTGGTTTAC
AC

ORF - retro_dnov_1334 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.59 %
Parental protein coverage: 51.27 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalRLISERGLPALRHV-FDKAKFKGRGHEAEDLKTLIRHMEHWAHRLFPKLQFEDFINRVEYLGNKKEVQTC
RLISERGLPALR.V..DKAK.KGRGHEA.DLK..IRHMEHWAHRLFPKLQFEDFINRVEYLGN.KEVQTC
RetrocopyRLISERGLPALRQV<VDKAKSKGRGHEAQDLKMRIRHMEHWAHRLFPKLQFEDFINRVEYLGNEKEVQTC
ParentalLKRIRLDLPVLH
LKRI.L.LP.LH
RetrocopyLKRIPLHLPGLH

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 2 .92 RPM
SRP012922_cerebellum 0 .00 RPM 8 .25 RPM
SRP012922_heart 0 .00 RPM 3 .94 RPM
SRP012922_kidney 0 .00 RPM 1 .10 RPM
SRP012922_liver 0 .00 RPM 2 .17 RPM
SRP012922_lung 0 .00 RPM 5 .96 RPM
SRP012922_quadricep_muscle 0 .00 RPM 1 .38 RPM
SRP012922_spleen 0 .00 RPM 7 .33 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_1334 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 10 parental genes, and 16 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000048601 retrocopy
Dasypus novemcinctus ENSDNOG00000003177 3 retrocopies
retro_dnov_1334 , retro_dnov_1481, retro_dnov_410,
Homo sapiens ENSG000000751311 retrocopy
Gorilla gorilla ENSGGOG000000000613 retrocopies
Loxodonta africana ENSLAFG000000260161 retrocopy
Microcebus murinus ENSMICG000000043862 retrocopies
Macaca mulatta ENSMMUG000000036951 retrocopy
Nomascus leucogenys ENSNLEG000000129091 retrocopy
Pan troglodytes ENSPTRG000000071922 retrocopies
Rattus norvegicus ENSRNOG000000430681 retrocopy



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