RetrogeneDB ID:

retro_dnov_1706

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_271633:131..433(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:UQCRB
Ensembl ID:ENSDNOG00000017312
Aliases:None
Description:ubiquinol-cytochrome c reductase binding protein [Source:HGNC Symbol;Acc:12582]


Retrocopy-Parental alignment summary:






>retro_dnov_1706
GCAGCATCAGGTTGATGGCTGGATGGTATTCGAAAATGGTATTACAATGCTGCAGGGTTCAATAAACTAGGGTTAATGAG
AGATGAAACAACAGCTGAGAACAAAGATGTAAAAGAAGACATAAGGCAACTTCCCAAGAATCTTTATAATGACAGGCTGT
TTCACATTAAGAAAGCACTGGACCTGACCATGAAGCATCACATCTTGCTTAAATAGCAGCGGACAAAATATGAGGATGAA
TTCTACTTGAACCATATTTGAAACAAGTTATTCTGGAAAGAGACGAAGATTGGGCAAAGAAA

ORF - retro_dnov_1706 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.95 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalASSGQWLDSIQKQYHRVVEGREKGLMRDDTY-ENEDVKEAIKRLPENVYNDRMFRIKRALDLTMKHQILP
A.SG.WLD.I.K.Y.........GLMRD.T..EN.DVKE.I..LP.N.YNDR.F.IK.ALDLTMKH.IL.
RetrocopyAASG*WLDGIRKWYYNAAGFNKLGLMRDETTAENKDVKEDIRQLPKNLYNDRLFHIKKALDLTMKHHILL
ParentalKEQWTKYEEDKFY-LEPYLKEVIREIKEREEWAKK
K.Q.TKY.ED.FY.LEPYLK.VI......E.WAKK
RetrocopyK*QRTKY-EDEFY<LEPYLKQVI--LERDEDWAKK

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 50 .95 RPM
SRP012922_cerebellum 0 .27 RPM 14 .30 RPM
SRP012922_heart 1 .39 RPM 91 .19 RPM
SRP012922_kidney 0 .55 RPM 31 .76 RPM
SRP012922_liver 0 .62 RPM 24 .15 RPM
SRP012922_lung 0 .31 RPM 17 .87 RPM
SRP012922_quadricep_muscle 0 .00 RPM 60 .58 RPM
SRP012922_spleen 0 .11 RPM 17 .51 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_1706 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 9 parental genes, and 20 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000094494 retrocopies
Dasypus novemcinctus ENSDNOG00000017312 8 retrocopies
Latimeria chalumnae ENSLACG000000044651 retrocopy
Myotis lucifugus ENSMLUG000000071821 retrocopy
Nomascus leucogenys ENSNLEG000000266701 retrocopy
Ochotona princeps ENSOPRG000000088922 retrocopies
Rattus norvegicus ENSRNOG000000249671 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000080171 retrocopy
Drosophila melanogaster FBgn00307331 retrocopy



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