RetrogeneDB ID:

retro_dnov_80

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_1346:234437..234620(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PPP1R14C
Ensembl ID:ENSDNOG00000017261
Aliases:None
Description:protein phosphatase 1, regulatory (inhibitor) subunit 14C [Source:HGNC Symbol;Acc:14952]


Retrocopy-Parental alignment summary:






>retro_dnov_80
TGCCAGGAAGAAGAGCTCCCAGAAGAGGAGATGGATGTGGATGAGCTCCTGGACATGGAGAGTGATGCTACGTGGGCTGC
CAGGGTAGAGGAGATGCTGGCTGACTGCTACAAACCCACTGAGGCCTTCTCTGGCCTACTGGACAAGATCCTGGGCATGC
AGAAGCTGAGCACACCCAGAAGA

ORF - retro_dnov_80 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 53.23 %
Parental protein coverage: 72.09 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalCQEEEMPDVEIDIDDLLDADSEEERALKLQEALIDCYKPTEEFIKELLSRIRGMRKLSPPQK
CQEEE.P..E.D.D.LLD..S....A....E.L.DCYKPTE.F...LL..I.GM.KLS.P..
RetrocopyCQEEELPEEEMDVDELLDMESDATWAARVEEMLADCYKPTEAF-SGLLDKILGMQKLSTPRR

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 .19 RPM 2 .14 RPM
SRP012922_cerebellum 0 .14 RPM 1 .51 RPM
SRP012922_heart 0 .00 RPM 9 .28 RPM
SRP012922_kidney 0 .27 RPM 3 .29 RPM
SRP012922_liver 0 .15 RPM 0 .00 RPM
SRP012922_lung 0 .15 RPM 7 .94 RPM
SRP012922_quadricep_muscle 0 .00 RPM 24 .23 RPM
SRP012922_spleen 0 .46 RPM 0 .23 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_80 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 6 parental genes, and 13 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000265862 retrocopies
Dasypus novemcinctus ENSDNOG00000017261 2 retrocopies
retro_dnov_1661, retro_dnov_80 ,
Myotis lucifugus ENSMLUG000000232452 retrocopies
Mus musculus ENSMUSG000000406532 retrocopies
Pongo abelii ENSPPYG000000171024 retrocopies
Tarsius syrichta ENSTSYG000000028731 retrocopy



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