RetrogeneDB ID:

retro_dnov_424

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_4567:85366..85724(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:UBE2E2
Ensembl ID:ENSDNOG00000005448
Aliases:None
Description:ubiquitin-conjugating enzyme E2E 2 [Source:HGNC Symbol;Acc:12478]


Retrocopy-Parental alignment summary:






>retro_dnov_424
GCTGGTCCAAAGGGTGATAACACCTATGAATGGAGATCAGCCATCCTAGGGCCTCCCGGATCTGTGTATGAGGGTGGTGT
TCTTTTCCTTGATATCACTTTTACACCAGAATATCCCTTCAAGCTTCCAAAGGTTATGTTTCAGACAAGAATCTCCGACT
GTAATATCACTAGTCAAGGAGCTGTTTGCCTGGACATATTGAAAGACAACTGGAGTGCAGAATTAATTATCTCTAAAGCC
CTCCTTTCTATCTGCTCACTTCTTACAATCAGCAGTCCTGCCTATCCCTTGGTAGGGAGTATTTGCCACTCAGTTCATGA
CCAACAGAGCAGAGCATGACAGAATGGCCAGGCAGTGG

ORF - retro_dnov_424 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.83 %
Parental protein coverage: 83.8 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalAGPKGDNIYEWRSTILGPPGSVYEGGVFFLDITFSPDYPFKPPKVTFRTRIYHCNINSQGVICLDILKDN
AGPKGDN.YEWRS.ILGPPGSVYEGGV.FLDITF.P.YPFK.PKV.F.TRI..CNI.SQG..CLDILKDN
RetrocopyAGPKGDNTYEWRSAILGPPGSVYEGGVLFLDITFTPEYPFKLPKVMFQTRISDCNITSQGAVCLDILKDN
ParentalWSPALTISKVLLSICSLLTDCNPADPLVGSI-ATQYMTNRAEHDRMARQW
WS..L.ISK.LLSICSLLT...PA.PLVGSI.ATQ.MTNRAEHDRMARQW
RetrocopyWSAELIISKALLSICSLLTISSPAYPLVGSI>ATQFMTNRAEHDRMARQW

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 6 .81 RPM
SRP012922_cerebellum 0 .00 RPM 13 .33 RPM
SRP012922_heart 0 .00 RPM 5 .10 RPM
SRP012922_kidney 0 .00 RPM 6 .84 RPM
SRP012922_liver 0 .00 RPM 1 .24 RPM
SRP012922_lung 0 .00 RPM 10 .23 RPM
SRP012922_quadricep_muscle 0 .00 RPM 3 .98 RPM
SRP012922_spleen 0 .00 RPM 11 .56 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_424 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 11 parental genes, and 53 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000103412 retrocopies
Ciona intestinalis ENSCING000000068601 retrocopy
Dasypus novemcinctus ENSDNOG00000005448 7 retrocopies
Dasypus novemcinctus ENSDNOG0000000932030 retrocopies
Dasypus novemcinctus ENSDNOG000000138211 retrocopy
Felis catus ENSFCAG000000077482 retrocopies
Microcebus murinus ENSMICG000000167993 retrocopies
Myotis lucifugus ENSMLUG000000251441 retrocopy
Ochotona princeps ENSOPRG000000106152 retrocopies
Tursiops truncatus ENSTTRG000000051561 retrocopy
Vicugna pacos ENSVPAG000000070073 retrocopies



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