RetrogeneDB ID:

retro_dnov_907

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_119818:0..310(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TSN
Ensembl ID:ENSDNOG00000025740
Aliases:None
Description:translin [Source:HGNC Symbol;Acc:12379]


Retrocopy-Parental alignment summary:






>retro_dnov_907
TTTTTGGAATCAGAAACACTCGTGACTCCAGAATTGGTTACTGAAATTTTTGGGCTTGAGCTAGATGGGGAGAAAAGATT
TCATCTGGATGTAGAAGACTATCTTTAAGGAGTTTTAATTCTTCCTAGTGAGCTATCAATGCTGTCAGTCAACAGCATGA
TGCTTGAGACTACTCGCCGCCCCTCCTCATTTCCACCTTCATCAAGAGCTGGATTCCGGTTTCTGCCATCTCAACCTGAA
GAACCATTCACTGAGGAAGTGCTATGATGGCTTTAAGTATGATGTGAAGAAAGTAGAAGCAGCTGTCTAT

ORF - retro_dnov_907 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.47 %
Parental protein coverage: 50.49 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalYLESETLVTREAVTEILGIEPDREKGFHLDVEDYLSGVLILASELSRLSVNSV-TAGDYSRPLHISTFI-
.LESETLVT.E.VTEI.G.E.D.EK.FHLDVEDYL.GVLIL.SELS.LSVNS...A.DYS.PL.ISTFI.
RetrocopyFLESETLVTPELVTEIFGLELDGEKRFHLDVEDYL*GVLILPSELSMLSVNSM<DA*DYSPPLLISTFI<
ParentalNELDSGFRLLNLKNDSLRKRYDGLKYDVKKVEEVVY
.ELDSGF..LNLKN.SLRK.YDG.KYDVKKVE..VY
RetrocopyQELDSGFCHLNLKNHSLRKCYDGFKYDVKKVEAAVY

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 11 .08 RPM
SRP012922_cerebellum 0 .00 RPM 12 .37 RPM
SRP012922_heart 0 .00 RPM 3 .25 RPM
SRP012922_kidney 0 .00 RPM 6 .30 RPM
SRP012922_liver 0 .00 RPM 5 .73 RPM
SRP012922_lung 0 .00 RPM 8 .71 RPM
SRP012922_quadricep_muscle 0 .00 RPM 3 .81 RPM
SRP012922_spleen 0 .00 RPM 11 .10 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_907 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 14 parental genes, and 18 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000060591 retrocopy
Dasypus novemcinctus ENSDNOG00000025740 2 retrocopies
retro_dnov_1581, retro_dnov_907 ,
Felis catus ENSFCAG000000271491 retrocopy
Homo sapiens ENSG000002114601 retrocopy
Gorilla gorilla ENSGGOG000000022162 retrocopies
Myotis lucifugus ENSMLUG000000126561 retrocopy
Macaca mulatta ENSMMUG000000211191 retrocopy
Monodelphis domestica ENSMODG000000001471 retrocopy
Nomascus leucogenys ENSNLEG000000012021 retrocopy
Ornithorhynchus anatinus ENSOANG000000034571 retrocopy
Oryctolagus cuniculus ENSOCUG000000235291 retrocopy
Otolemur garnettii ENSOGAG000000304363 retrocopies
Pan troglodytes ENSPTRG000000124201 retrocopy
Tarsius syrichta ENSTSYG000000043951 retrocopy



Copyright © RetrogeneDB 2014-2017