RetrogeneDB ID:

retro_dnov_549

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_6036:139172..139595(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TMEM126A
Ensembl ID:ENSDNOG00000004391
Aliases:None
Description:transmembrane protein 126A [Source:HGNC Symbol;Acc:25382]


Retrocopy-Parental alignment summary:






>retro_dnov_549
ACGGACCAAGAAAACTTAACTTTCAACATCGTAACTACAAAAGCCAACCAACTTCCAGAAGTAGAAAAGAATCTATTTAA
ACAAAATATTTCAACAAATATTAGACTTGCTGCTGTTCTGCGTGGACTAATAGCCAAAAGACTTTTTCCACGTGCCTTCA
CTGTGACACAGGAACAAAGAGCTGCTGGCTTACCAAGTATGCTGGGGATGCCATTTTTGACAGCACATGTACCTTACAGA
GGTTTTGTAAGTTTACCTTTGAGTACAGGTGATTTGAATTGTAAGACTTGTTCTGTAACATGGGGTGTTTGGCTTGGTCT
TGTTTTTGGTGGGCTGTACCCTGTCTCCTTGGCTGTACCTGTGAATGGTGGCCTAGTAGCCATGTACGTCTCAGCCATGC
TATCAGAGAAAGGAAACAACTTA

ORF - retro_dnov_549 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.49 %
Parental protein coverage: 70.71 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalTIKENLTTLNIITRKINQLPEVERNLFEHG-STYIGLNAALCGLIANSLFRRVLNVTQARIAAGLP-MAV
T..ENLT..NI.T.K.NQLPEVE.NLF....ST.I.L.A.L.GLIA..LF.R...VTQ...AAGLP.M..
RetrocopyTDQENLT-FNIVTTKANQLPEVEKNLFKQNISTNIRLAAVLRGLIAKRLFPRAFTVTQEQRAAGLPSMLG
ParentalIPFLTAHASYKGFVSLPLTTGDLNCETCTVTRGGLVGLVFGGLYPVFLAIPVNGGLAARYISAVLPERGN
.PFLTAH..Y.GFVSLPL.TGDLNC.TC.VT.G...GLVFGGLYPV.LA.PVNGGL.A.Y.SA.L.E.GN
RetrocopyMPFLTAHVPYRGFVSLPLSTGDLNCKTCSVTWGVWLGLVFGGLYPVSLAVPVNGGLVAMYVSAMLSEKGN
ParentalIL
.L
RetrocopyNL

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 20 .03 RPM
SRP012922_cerebellum 0 .00 RPM 11 .96 RPM
SRP012922_heart 0 .00 RPM 23 .67 RPM
SRP012922_kidney 0 .00 RPM 20 .26 RPM
SRP012922_liver 0 .00 RPM 12 .23 RPM
SRP012922_lung 0 .31 RPM 11 .76 RPM
SRP012922_quadricep_muscle 0 .00 RPM 44 .48 RPM
SRP012922_spleen 0 .11 RPM 17 .17 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_549 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 28 parental genes, and 80 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000087032 retrocopies
Bos taurus ENSBTAG000000004512 retrocopies
Canis familiaris ENSCAFG000000309131 retrocopy
Callithrix jacchus ENSCJAG000000144661 retrocopy
Dasypus novemcinctus ENSDNOG00000004391 7 retrocopies
Dipodomys ordii ENSDORG000000064082 retrocopies
Erinaceus europaeus ENSEEUG000000091053 retrocopies
Echinops telfairi ENSETEG000000071802 retrocopies
Felis catus ENSFCAG000000276063 retrocopies
Homo sapiens ENSG000001712022 retrocopies
Gorilla gorilla ENSGGOG000000277422 retrocopies
Macropus eugenii ENSMEUG000000116251 retrocopy
Microcebus murinus ENSMICG000000055103 retrocopies
Myotis lucifugus ENSMLUG000000058963 retrocopies
Macaca mulatta ENSMMUG000000165422 retrocopies
Mustela putorius furoENSMPUG000000099682 retrocopies
Mus musculus ENSMUSG000000306153 retrocopies
Nomascus leucogenys ENSNLEG000000164082 retrocopies
Oryctolagus cuniculus ENSOCUG000000165341 retrocopy
Otolemur garnettii ENSOGAG0000000540312 retrocopies
Pongo abelii ENSPPYG000000037392 retrocopies
Pan troglodytes ENSPTRG000000041342 retrocopies
Pteropus vampyrus ENSPVAG000000061972 retrocopies
Rattus norvegicus ENSRNOG000000227483 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000161012 retrocopies
Tupaia belangeri ENSTBEG000000091575 retrocopies
Tarsius syrichta ENSTSYG000000090716 retrocopies
Tursiops truncatus ENSTTRG000000120082 retrocopies



Copyright © RetrogeneDB 2014-2017