RetrogeneDB ID:

retro_dnov_154

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_2159:57354..57852(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSDNOG00000025364
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:HRAS
Ensembl ID:ENSDNOG00000015293
Aliases:None
Description:Harvey rat sarcoma viral oncogene homolog [Source:HGNC Symbol;Acc:5173]


Retrocopy-Parental alignment summary:






>retro_dnov_154
CTAATACAGAACCACTTTGTAGATGAGTATGATCCCACCATAGAGGATTCTTACCGAAAAAAGGTGGTTATAGATGGTGA
AACCTGTCTGCTGGACATTCTGGATACAGCCGGACAAGAGGAGTACAGTGCCATGAGAGACCAGTACATGAGGACAGGCG
AAGGTTTCCTCTGTGTGTTTGCCATCAATAATAGCAAATCATTTGCAGATATTAACCTCTACAGAGAGCAGATTAAACGA
GTTAAAGATTCAGATGATGTACCTATGGTGCTGGTAGGAAACAGGTGTGATTTGCCAACAAGGACAGTTGACACAAAACA
AGCCCATGAACTGGCCAAGAGTTATGGGATTCCATTCATTGAAACCTCAGCCAAGACCAGACAGGGTGTTGAAGAGGCCT
TTTACACACTGGTAAGAGAAATACATCAGTATCGAATGAAAAAACTCAACAGCAATGATGATGGGACTCAAGGTTGTATG
GGGTTGCCGTGTGTGGTG

ORF - retro_dnov_154 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.72 %
Parental protein coverage: 87.83 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFED
LIQNHFVDEYDPTIEDSYRK.VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINN.KSF.D
RetrocopyLIQNHFVDEYDPTIEDSYRKKVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFAD
ParentalIHQYREQIKRVKDSDDVPMVLVGNKCDLPARTVDARQAQELACSYGLPYVETSAKTRQGVEDAFYTLVRE
I..YREQIKRVKDSDDVPMVLVGN.CDLP.RTVD..QA.ELA.SYG.P..ETSAKTRQGVE.AFYTLVRE
RetrocopyINLYREQIKRVKDSDDVPMVLVGNRCDLPTRTVDTKQAHELAKSYGIPFIETSAKTRQGVEEAFYTLVRE
ParentalIRQHKLRKLNPPDESGPGCADCKCTL
I.Q....KLN..D....GC....C..
RetrocopyIHQYRMKKLNSNDDGTQGCMGLPCVV

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 23 .53 RPM 11 .67 RPM
SRP012922_cerebellum 4 .12 RPM 17 .73 RPM
SRP012922_heart 1 .62 RPM 7 .19 RPM
SRP012922_kidney 7 .67 RPM 23 .00 RPM
SRP012922_liver 6 .66 RPM 8 .20 RPM
SRP012922_lung 9 .62 RPM 17 .72 RPM
SRP012922_quadricep_muscle 2 .77 RPM 37 .73 RPM
SRP012922_spleen 12 .82 RPM 9 .39 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_154 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 8 parental genes, and 32 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG000000078095 retrocopies
Dasypus novemcinctus ENSDNOG00000015293 3 retrocopies
retro_dnov_1358, retro_dnov_154 , retro_dnov_2354,
Dasypus novemcinctus ENSDNOG000000174131 retrocopy
Dasypus novemcinctus ENSDNOG0000001972418 retrocopies
Echinops telfairi ENSETEG000000198992 retrocopies
Macropus eugenii ENSMEUG000000084671 retrocopy
Microcebus murinus ENSMICG000000064721 retrocopy
Rattus norvegicus ENSRNOG000000166111 retrocopy



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