Human Gene ATP6V1F (ENST00000249289.5_4) from GENCODE V47lift37
  Description: ATPase H+ transporting V1 subunit F, transcript variant 1 (from RefSeq NM_004231.4)
Gencode Transcript: ENST00000249289.5_4
Gencode Gene: ENSG00000128524.5_7
Transcript (Including UTRs)
   Position: hg19 chr7:128,502,910-128,505,901 Size: 2,992 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr7:128,502,959-128,505,632 Size: 2,674 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:128,502,910-128,505,901)mRNA (may differ from genome)Protein (119 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: VATF_HUMAN
DESCRIPTION: RecName: Full=V-type proton ATPase subunit F; Short=V-ATPase subunit F; AltName: Full=V-ATPase 14 kDa subunit; AltName: Full=Vacuolar proton pump subunit F;
FUNCTION: Subunit of the peripheral V1 complex of vacuolar ATPase essential for assembly or catalytic function. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells.
SUBUNIT: V-ATPase is a heteromultimeric enzyme composed of a peripheral catalytic V1 complex (components A to H) attached to an integral membrane V0 proton pore complex (components: a, c, c', c'' and d).
SIMILARITY: Belongs to the V-ATPase F subunit family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 173.65 RPKM in Testis
Total median expression: 4301.35 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -15.0049-0.306 Picture PostScript Text
3' UTR -64.10269-0.238 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
IPR005772 - ATPase_V1-cplx_fsu_euk
IPR008218 - ATPase_V1/A1-cplx_fsu

Pfam Domains:
PF01990 - ATP synthase (F/14-kDa) subunit

SCOP Domains:
159468 - AtpF-like
51735 - NAD(P)-binding Rossmann-fold domains
52210 - Succinyl-CoA synthetase domains

ModBase Predicted Comparative 3D Structure on Q16864
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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.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologGenome Browser
Gene DetailsGene Details Gene Details Gene Details
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 RGDEnsembl  SGD
     Protein Sequence
     Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0015078 hydrogen ion transmembrane transporter activity
GO:0042624 ATPase activity, uncoupled
GO:0042625 ATPase coupled ion transmembrane transporter activity
GO:0046961 proton-transporting ATPase activity, rotational mechanism

Biological Process:
GO:0006811 ion transport
GO:0008286 insulin receptor signaling pathway
GO:0015991 ATP hydrolysis coupled proton transport
GO:0033572 transferrin transport
GO:0034220 ion transmembrane transport
GO:1902600 hydrogen ion transmembrane transport

Cellular Component:
GO:0005829 cytosol
GO:0016020 membrane
GO:0016469 proton-transporting two-sector ATPase complex
GO:0016471 vacuolar proton-transporting V-type ATPase complex
GO:0033180 proton-transporting V-type ATPase, V1 domain
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  BC107854 - Homo sapiens ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F, mRNA (cDNA clone MGC:117321 IMAGE:5171984), complete cds.
JD211122 - Sequence 192146 from Patent EP1572962.
BC104230 - Homo sapiens ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F, mRNA (cDNA clone MGC:126037 IMAGE:40032234), complete cds.
BC104231 - Homo sapiens ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F, mRNA (cDNA clone MGC:126038 IMAGE:40032235), complete cds.
D49400 - Homo sapiens mRNA for vacuolar ATPase, complete cds.
AK312214 - Homo sapiens cDNA, FLJ92503, Homo sapiens ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F(ATP6V1F), mRNA.
JD523974 - Sequence 504998 from Patent EP1572962.
CR456896 - Homo sapiens full open reading frame cDNA clone RZPDo834C037D for gene ATP6V1F, ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F; complete cds, incl. stopcodon.
KJ892737 - Synthetic construct Homo sapiens clone ccsbBroadEn_02131 ATP6V1F gene, encodes complete protein.
JD399462 - Sequence 380486 from Patent EP1572962.
JD417368 - Sequence 398392 from Patent EP1572962.
JD118965 - Sequence 99989 from Patent EP1572962.
JD443663 - Sequence 424687 from Patent EP1572962.
JD076328 - Sequence 57352 from Patent EP1572962.
JD462143 - Sequence 443167 from Patent EP1572962.
JD466578 - Sequence 447602 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY-7980 - ATP biosynthesis

Reactome (by CSHL, EBI, and GO)

Protein Q16864 (Reactome details) participates in the following event(s):

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

-  Other Names for This Gene
  Alternate Gene Symbols: ATP6S14, C9J2K4, ENST00000249289.1, ENST00000249289.2, ENST00000249289.3, ENST00000249289.4, NM_004231, Q16864, Q6IBA8, uc317ezf.1, uc317ezf.2, VATF, VATF_HUMAN
UCSC ID: ENST00000249289.5_4
RefSeq Accession: NM_004231.4
Protein: Q16864 (aka VATF_HUMAN)

-  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.