RetrogeneDB ID:

retro_btau_1428

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:5:57822788..57823004(-)
Located in intron of:ENSBTAG00000020662
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ATP6V0E1
Ensembl ID:ENSBTAG00000015100
Aliases:ATP6V0E1, ATP6V0E
Description:V-type proton ATPase subunit e 1 [Source:UniProtKB/Swiss-Prot;Acc:P81103]


Retrocopy-Parental alignment summary:






>retro_btau_1428
CTGATCGTGATGAACGTTTTCTGGGGCTTTGTTGGCTTCCTGGTATTCTGGTTCATCCCTAAAGGTCCCAACTGAGGAGT
TACCATCACTATGTTGGTGATCTGTTCAGTATGCTGCTACCTCTTTTGGCTGATTCCAATTCTGGCTCAACTCAACCCTT
TCTTTAGACCATAGTTGAAAAATGAAACCATCTGGTACCTCAAGTATCACTGGCCT

ORF - retro_btau_1428 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.11 %
Parental protein coverage: 88.89 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLIVMSVFWGIVGFLVPWFIPKGPNRGVIITMLVTCSVCCYLFWLIAILAQLNPLFGPQLKNETIWYLKYH
LIVM.VFWG.VGFLV.WFIPKGPN.GV.ITMLV.CSVCCYLFWLI.ILAQLNP.F.P.LKNETIWYLKYH
RetrocopyLIVMNVFWGFVGFLVFWFIPKGPN*GVTITMLVICSVCCYLFWLIPILAQLNPFFRP*LKNETIWYLKYH
ParentalWP
WP
RetrocopyWP

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
ERP005899_liver 1 .01 RPM 52 .56 RPM
ERP005899_muscle 0 .42 RPM 60 .34 RPM
SRP017611_brain 3 .56 RPM 7 .86 RPM
SRP017611_kidney 0 .65 RPM 72 .31 RPM
SRP017611_liver 0 .08 RPM 42 .96 RPM
SRP030211_testis 0 .40 RPM 68 .05 RPM
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1428 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1428 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_1428 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 23 parental genes, and 61 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000151831 retrocopy
Ailuropoda melanoleuca ENSAMEG000000112831 retrocopy
Bos taurus ENSBTAG00000015100 4 retrocopies
Canis familiaris ENSCAFG000000318983 retrocopies
Choloepus hoffmanni ENSCHOG000000044219 retrocopies
Callithrix jacchus ENSCJAG000000192254 retrocopies
Felis catus ENSFCAG000000317891 retrocopy
Homo sapiens ENSG000001137323 retrocopies
Gorilla gorilla ENSGGOG000000067013 retrocopies
Macropus eugenii ENSMEUG000000085893 retrocopies
Myotis lucifugus ENSMLUG000000098042 retrocopies
Macaca mulatta ENSMMUG000000138252 retrocopies
Oryctolagus cuniculus ENSOCUG000000061742 retrocopies
Otolemur garnettii ENSOGAG000000170712 retrocopies
Ochotona princeps ENSOPRG000000006731 retrocopy
Pongo abelii ENSPPYG000000296693 retrocopies
Pan troglodytes ENSPTRG000000175383 retrocopies
Rattus norvegicus ENSRNOG000000032691 retrocopy
Sarcophilus harrisii ENSSHAG000000070471 retrocopy
Tupaia belangeri ENSTBEG000000054621 retrocopy
Tarsius syrichta ENSTSYG000000065905 retrocopies
Tursiops truncatus ENSTTRG000000106265 retrocopies
Vicugna pacos ENSVPAG000000119961 retrocopy



Copyright © RetrogeneDB 2014-2017