Mouse Gene Atp6v0b (ENSMUST00000036380.13) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus ATPase, H+ transporting, lysosomal V0 subunit B (Atp6v0b), mRNA. (from RefSeq NM_033617)
Gencode Transcript: ENSMUST00000036380.13
Gencode Gene: ENSMUSG00000033379.13
Transcript (Including UTRs)
   Position: mm10 chr4:117,884,326-117,887,329 Size: 3,004 Total Exon Count: 8 Strand: -
Coding Region
   Position: mm10 chr4:117,884,615-117,887,236 Size: 2,622 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:117,884,326-117,887,329)mRNA (may differ from genome)Protein (205 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: VATO_MOUSE
DESCRIPTION: RecName: Full=V-type proton ATPase 21 kDa proteolipid subunit; Short=V-ATPase 21 kDa proteolipid subunit; AltName: Full=23 kDa subunit of V-ATPase; AltName: Full=Vacuolar proton pump 21 kDa proteolipid subunit;
FUNCTION: Proton-conducting pore forming subunit of the membrane integral V0 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells.
SUBUNIT: Interacts with IFITM3.
SUBCELLULAR LOCATION: Vacuole membrane; Multi-pass membrane protein.
TISSUE SPECIFICITY: Ubiquitous.
SIMILARITY: Belongs to the V-ATPase proteolipid subunit family.

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -46.0093-0.495 Picture PostScript Text
3' UTR -107.20289-0.371 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR002379 - ATPase_F0/V0-cplx_csu
IPR000245 - ATPase_V0-cplx_csu

Pfam Domains:
PF00137 - ATP synthase subunit C

SCOP Domains:
81333 - F1F0 ATP synthase subunit C

ModBase Predicted Comparative 3D Structure on Q91V37
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologGenome BrowserGenome BrowserNo ortholog
Gene Details    Gene Details
Gene Sorter    Gene Sorter
GenBankRGDEnsemblEnsemblWormBaseSGD
Protein SequenceProtein Sequence Protein Sequence  
AlignmentAlignment Alignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0008553 hydrogen-exporting ATPase activity, phosphorylative mechanism
GO:0015078 hydrogen ion transmembrane transporter activity
GO:0046961 proton-transporting ATPase activity, rotational mechanism

Biological Process:
GO:0006811 ion transport
GO:0007035 vacuolar acidification
GO:0015991 ATP hydrolysis coupled proton transport

Cellular Component:
GO:0000220 vacuolar proton-transporting V-type ATPase, V0 domain
GO:0005768 endosome
GO:0005773 vacuole
GO:0005774 vacuolar membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0016471 vacuolar proton-transporting V-type ATPase complex
GO:0033177 proton-transporting two-sector ATPase complex, proton-transporting domain
GO:0033179 proton-transporting V-type ATPase, V0 domain


-  Descriptions from all associated GenBank mRNAs
  LF194567 - JP 2014500723-A/2070: Polycomb-Associated Non-Coding RNAs.
LF194569 - JP 2014500723-A/2072: Polycomb-Associated Non-Coding RNAs.
AK211031 - Mus musculus cDNA, clone:Y2G0120G22, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
AK211051 - Mus musculus cDNA, clone:Y2G0120H21, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
AK189647 - Mus musculus cDNA, clone:Y0G0149O07, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
BC030393 - Mus musculus ATPase, H+ transporting, lysosomal V0 subunit B, mRNA (cDNA clone MGC:40642 IMAGE:4922226), complete cds.
LF274155 - JP 2014500723-A/81658: Polycomb-Associated Non-Coding RNAs.
AK021272 - Mus musculus 12 days embryo spinal cord cDNA, RIKEN full-length enriched library, clone:C530010I21 product:ATPase, H+ transporting, lysosomal (vacuolar proton pump), full insert sequence.
AK009495 - Mus musculus adult male tongue cDNA, RIKEN full-length enriched library, clone:2310024H13 product:ATPase, H+ transporting, lysosomal (vacuolar proton pump), full insert sequence.
AK152823 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830086M23 product:ATPase, H+ transporting, V0 subunit B, full insert sequence.
AF356006 - Mus musculus vacuolar proton-translocating ATPase 21 kDa subunit mRNA, complete cds.
BC009169 - Mus musculus ATPase, H+ transporting, lysosomal V0 subunit B, mRNA (cDNA clone MGC:6568 IMAGE:2812497), complete cds.
AB060654 - Mus musculus Atp6f mRNA for 23-kDa proteolipid, complete cds.
AK151365 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830028J18 product:ATPase, H+ transporting, V0 subunit B, full insert sequence.
AK151847 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830040I06 product:ATPase, H+ transporting, V0 subunit B, full insert sequence.
AK170493 - Mus musculus NOD-derived CD11c +ve dendritic cells cDNA, RIKEN full-length enriched library, clone:F630105L04 product:ATPase, H+ transporting, V0 subunit B, full insert sequence.
AK152330 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830062H05 product:ATPase, H+ transporting, V0 subunit B, full insert sequence.
AK210235 - Mus musculus cDNA, clone:Y2G0117L23, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
AK212370 - Mus musculus cDNA, clone:Y2G0124L14, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
AK205813 - Mus musculus cDNA, clone:Y2G0102N20, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
AK206535 - Mus musculus cDNA, clone:Y2G0105C23, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
AK180083 - Mus musculus cDNA, clone:Y0G0112N13, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
AK208636 - Mus musculus cDNA, clone:Y2G0112E11, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
LF274158 - JP 2014500723-A/81661: Polycomb-Associated Non-Coding RNAs.
AK184951 - Mus musculus cDNA, clone:Y0G0132B10, strand:unspecified.
BD062203 - Gene diagnostic agent/gene therapeutic agent of tumor using tumor specific antigen and novel application of proton pump inhibitor as antitumor drug.
AK179535 - Mus musculus cDNA, clone:Y0G0110M14, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
AK200953 - Mus musculus cDNA, clone:Y1G0136I09, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
AK217120 - Mus musculus cDNA, clone:Y2G0140L13, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000036380, based on BLAT search.
LF274162 - JP 2014500723-A/81665: Polycomb-Associated Non-Coding RNAs.
MA430144 - JP 2018138019-A/2070: Polycomb-Associated Non-Coding RNAs.
MA430146 - JP 2018138019-A/2072: Polycomb-Associated Non-Coding RNAs.
MA509732 - JP 2018138019-A/81658: Polycomb-Associated Non-Coding RNAs.
MA509735 - JP 2018138019-A/81661: Polycomb-Associated Non-Coding RNAs.
MA509739 - JP 2018138019-A/81665: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu00190 - Oxidative phosphorylation
mmu01100 - Metabolic pathways
mmu04142 - Lysosome
mmu04145 - Phagosome
mmu05323 - Rheumatoid arthritis

Reactome (by CSHL, EBI, and GO)

Protein Q91V37 (Reactome details) participates in the following event(s):

R-MMU-5252133 ATP6AP1 binds V-ATPase
R-MMU-1222516 Intraphagosomal pH is lowered to 5 by V-ATPase
R-MMU-74723 Endosome acidification
R-MMU-917841 Acidification of Tf:TfR1 containing endosome
R-MMU-77387 Insulin receptor recycling
R-MMU-983712 Ion channel transport
R-MMU-917977 Transferrin endocytosis and recycling
R-MMU-74752 Signaling by Insulin receptor
R-MMU-382551 Transport of small molecules
R-MMU-917937 Iron uptake and transport
R-MMU-1222556 ROS, RNS production in phagocytes
R-MMU-9006934 Signaling by Receptor Tyrosine Kinases
R-MMU-168249 Innate Immune System
R-MMU-162582 Signal Transduction
R-MMU-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: Atp6f, NM_033617, Q91V37, uc008ujc.1, uc008ujc.2, VATO_MOUSE
UCSC ID: uc008ujc.2
RefSeq Accession: NM_033617
Protein: Q91V37 (aka VATO_MOUSE)
CCDS: CCDS18540.1

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.