Human Gene NFATC3 (ENST00000346183.8_8) from GENCODE V47lift37
  Description: nuclear factor of activated T cells 3, transcript variant 1 (from RefSeq NM_173165.3)
Gencode Transcript: ENST00000346183.8_8
Gencode Gene: ENSG00000072736.19_13
Transcript (Including UTRs)
   Position: hg19 chr16:68,119,273-68,263,162 Size: 143,890 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr16:68,119,585-68,260,374 Size: 140,790 Coding Exon Count: 10 

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 (chr16:68,119,273-68,263,162)mRNA (may differ from genome)Protein (1075 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: NFAC3_HUMAN
DESCRIPTION: RecName: Full=Nuclear factor of activated T-cells, cytoplasmic 3; Short=NF-ATc3; Short=NFATc3; AltName: Full=NFATx; AltName: Full=T-cell transcription factor NFAT4; Short=NF-AT4;
FUNCTION: Acts as a regulator of transcriptional activation. Plays a role in the inducible expression of cytokine genes in T-cells, especially in the induction of the IL-2.
SUBUNIT: Member of the multicomponent NFATC transcription complex that consists of at least two components, a pre-existing cytoplasmic component NFATC2 and an inducible nuclear component NFATC1. Other members such as NFATC4, NFATC3 or members of the activating protein-1 family, MAF, GATA4 and Cbp/p300 can also bind the complex. NFATC proteins bind to DNA as monomers.
SUBCELLULAR LOCATION: Cytoplasm. Nucleus. Note=Cytoplasmic for the phosphorylated form and nuclear after activation that is controlled by calcineurin-mediated dephosphorylation. Rapid nuclear exit of NFATC is thought to be one mechanism by which cells distinguish between sustained and transient calcium signals. The subcellular localization of NFATC plays a key role in the regulation of gene transcription.
TISSUE SPECIFICITY: Isoform 1 is predominantly expressed in thymus and is also found in peripheral blood leukocytes and kidney. Isoform 2 is predominantly expressed in skeletal muscle and is also found in thymus, kidney, testis, spleen, prostate, ovary, small intestine, heart, placenta and pancreas. Isoform 3 is expressed in thymus and kidney. Isoform 4 is expressed in thymus and skeletal muscle.
DOMAIN: Rel Similarity Domain (RSD) allows DNA-binding and cooperative interactions with AP1 factors.
PTM: Phosphorylated by NFATC-kinase; dephosphorylated by calcineurin (By similarity).
SIMILARITY: Contains 1 RHD (Rel-like) domain.

-  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: 11.67 RPKM in Testis
Total median expression: 149.35 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 -177.60312-0.569 Picture PostScript Text
3' UTR -833.702788-0.299 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
IPR013783 - Ig-like_fold
IPR014756 - Ig_E-set
IPR002909 - IPT_TIG_rcpt
IPR008366 - NFAT
IPR008967 - p53-like_TF_DNA-bd
IPR011539 - RHD

Pfam Domains:
PF00554 - Rel homology DNA-binding domain
PF01833 - IPT/TIG domain
PF16179 - Rel homology dimerisation domain

SCOP Domains:
81296 - E set domains
49417 - p53-like transcription factors

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2XRW - X-ray MuPIT 2XS0 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q12968
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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 orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001077 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0001227 transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0006366 transcription from RNA polymerase II promoter
GO:0006954 inflammatory response
GO:0038095 Fc-epsilon receptor signaling pathway
GO:0045893 positive regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:1902894 negative regulation of pri-miRNA transcription from RNA polymerase II promoter
GO:1905064 negative regulation of vascular smooth muscle cell differentiation

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  EU887610 - Homo sapiens nuclear factor of activated T-cells c3 isoform IAL-IX (NFATC3) mRNA, complete cds, alternatively spliced.
EU887609 - Homo sapiens nuclear factor of activated T-cells c3 isoform IAL-deltaXa (NFATC3) mRNA, complete cds, alternatively spliced.
EU887608 - Homo sapiens nuclear factor of activated T-cells c3 isoform IAL-Xa (NFATC3) mRNA, complete cds, alternatively spliced.
EU887613 - Homo sapiens nuclear factor of activated T-cells c3 isoform IAS-IX (NFATC3) mRNA, complete cds, alternatively spliced.
EU887612 - Homo sapiens nuclear factor of activated T-cells c3 isoform IAS-deltaXa (NFATC3) mRNA, complete cds, alternatively spliced.
EU887611 - Homo sapiens nuclear factor of activated T-cells c3 isoform IAS-Xa (NFATC3) mRNA, complete cds, alternatively spliced.
LF384440 - JP 2014500723-A/191943: Polycomb-Associated Non-Coding RNAs.
AB209824 - Homo sapiens mRNA for cytoplasmic nuclear factor of activated T-cells 3 isoform 4 variant protein.
L41067 - Homo sapiens NF-AT4c mRNA, complete cds.
AK290370 - Homo sapiens cDNA FLJ77451 complete cds, highly similar to Homo sapiens nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3 (NFATC3), transcript variant 1, mRNA.
BC001050 - Homo sapiens nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3, mRNA (cDNA clone MGC:1495 IMAGE:3505967), complete cds.
U85430 - Homo sapiens transcription factor NFATx4 mRNA, complete cds.
U14510 - Human transcription factor NFATx mRNA, complete cds.
U85428 - Homo sapiens transcription factor NFATx2 mRNA, complete cds.
U85429 - Homo sapiens transcription factor NFATx3 mRNA, complete cds.
EU887607 - Homo sapiens nuclear factor of activated T-cells c3 isoform IB-IX (NFATC3) mRNA, complete cds, alternatively spliced.
AB590357 - Synthetic construct DNA, clone: pFN21AE1459, Homo sapiens NFATC3 gene for nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3, without stop codon, in Flexi system.
DQ895384 - Synthetic construct Homo sapiens clone IMAGE:100009844; FLH183872.01L; RZPDo839H07141D nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3 (NFATC3) gene, encodes complete protein.
KJ891694 - Synthetic construct Homo sapiens clone ccsbBroadEn_01088 NFATC3 gene, encodes complete protein.
EU887606 - Homo sapiens nuclear factor of activated T-cells c3 isoform IB-deltaXa (NFATC3) mRNA, complete cds, alternatively spliced.
EU887605 - Homo sapiens nuclear factor of activated T-cells c3 isoform IB-Xa (NFATC3) mRNA, complete cds, alternatively spliced.
EU887616 - Homo sapiens nuclear factor of activated T-cells c3 isoform IC-IX (NFATC3) mRNA, complete cds, alternatively spliced.
EU887615 - Homo sapiens nuclear factor of activated T-cells c3 isoform IC-deltaXa (NFATC3) mRNA, complete cds, alternatively spliced.
EU887614 - Homo sapiens nuclear factor of activated T-cells c3 isoform IC-Xa (NFATC3) mRNA, complete cds, alternatively spliced.
EU887619 - Homo sapiens nuclear factor of activated T-cells c3 isoform ID-IX (NFATC3) mRNA, complete cds, alternatively spliced.
EU887618 - Homo sapiens nuclear factor of activated T-cells c3 isoform ID-deltaXa (NFATC3) mRNA, complete cds, alternatively spliced.
EU887617 - Homo sapiens nuclear factor of activated T-cells c3 isoform ID-Xa (NFATC3) mRNA, complete cds, alternatively spliced.
EU887622 - Homo sapiens nuclear factor of activated T-cells c3 isoform IE-IX (NFATC3) mRNA, complete cds, alternatively spliced.
EU887621 - Homo sapiens nuclear factor of activated T-cells c3 isoform IE-deltaXa (NFATC3) mRNA, complete cds, alternatively spliced.
EU887620 - Homo sapiens nuclear factor of activated T-cells c3 isoform IE-Xa mRNA, complete cds, alternatively spliced.
EU887625 - Homo sapiens nuclear factor of activated T-cells c3 isoform IF-IX (NFATC3) mRNA, complete cds, alternatively spliced.
EU887624 - Homo sapiens nuclear factor of activated T-cells c3 isoform IF-deltaXa (NFATC3) mRNA, complete cds, alternatively spliced.
EU887623 - Homo sapiens nuclear factor of activated T-cells c3 isoform IF-Xa (NFATC3) mRNA, complete cds, alternatively spliced.
MA620017 - JP 2018138019-A/191943: Polycomb-Associated Non-Coding RNAs.
JD210631 - Sequence 191655 from Patent EP1572962.
JD129148 - Sequence 110172 from Patent EP1572962.
JD186733 - Sequence 167757 from Patent EP1572962.
LF374176 - JP 2014500723-A/181679: Polycomb-Associated Non-Coding RNAs.
LF374181 - JP 2014500723-A/181684: Polycomb-Associated Non-Coding RNAs.
MA609753 - JP 2018138019-A/181679: Polycomb-Associated Non-Coding RNAs.
MA609758 - JP 2018138019-A/181684: Polycomb-Associated Non-Coding RNAs.
LF374184 - JP 2014500723-A/181687: Polycomb-Associated Non-Coding RNAs.
LF374185 - JP 2014500723-A/181688: Polycomb-Associated Non-Coding RNAs.
LF374186 - JP 2014500723-A/181689: Polycomb-Associated Non-Coding RNAs.
LF374187 - JP 2014500723-A/181690: Polycomb-Associated Non-Coding RNAs.
LF374189 - JP 2014500723-A/181692: Polycomb-Associated Non-Coding RNAs.
AK057574 - Homo sapiens cDNA FLJ33012 fis, clone THYMU1000366.
LF208292 - JP 2014500723-A/15795: Polycomb-Associated Non-Coding RNAs.
JD298710 - Sequence 279734 from Patent EP1572962.
JD177211 - Sequence 158235 from Patent EP1572962.
LF374194 - JP 2014500723-A/181697: Polycomb-Associated Non-Coding RNAs.
JD278450 - Sequence 259474 from Patent EP1572962.
JD218115 - Sequence 199139 from Patent EP1572962.
JD535560 - Sequence 516584 from Patent EP1572962.
JD546951 - Sequence 527975 from Patent EP1572962.
JD516328 - Sequence 497352 from Patent EP1572962.
LF374195 - JP 2014500723-A/181698: Polycomb-Associated Non-Coding RNAs.
JD235706 - Sequence 216730 from Patent EP1572962.
JD167949 - Sequence 148973 from Patent EP1572962.
JD046366 - Sequence 27390 from Patent EP1572962.
LF374196 - JP 2014500723-A/181699: Polycomb-Associated Non-Coding RNAs.
LF374197 - JP 2014500723-A/181700: Polycomb-Associated Non-Coding RNAs.
DQ590402 - Homo sapiens piRNA piR-57514, complete sequence.
LF374198 - JP 2014500723-A/181701: Polycomb-Associated Non-Coding RNAs.
LF374199 - JP 2014500723-A/181702: Polycomb-Associated Non-Coding RNAs.
LF208293 - JP 2014500723-A/15796: Polycomb-Associated Non-Coding RNAs.
LF374200 - JP 2014500723-A/181703: Polycomb-Associated Non-Coding RNAs.
MA609761 - JP 2018138019-A/181687: Polycomb-Associated Non-Coding RNAs.
MA609762 - JP 2018138019-A/181688: Polycomb-Associated Non-Coding RNAs.
MA609763 - JP 2018138019-A/181689: Polycomb-Associated Non-Coding RNAs.
MA609764 - JP 2018138019-A/181690: Polycomb-Associated Non-Coding RNAs.
MA609766 - JP 2018138019-A/181692: Polycomb-Associated Non-Coding RNAs.
MA443869 - JP 2018138019-A/15795: Polycomb-Associated Non-Coding RNAs.
MA609771 - JP 2018138019-A/181697: Polycomb-Associated Non-Coding RNAs.
MA609772 - JP 2018138019-A/181698: Polycomb-Associated Non-Coding RNAs.
MA609773 - JP 2018138019-A/181699: Polycomb-Associated Non-Coding RNAs.
MA609774 - JP 2018138019-A/181700: Polycomb-Associated Non-Coding RNAs.
MA609775 - JP 2018138019-A/181701: Polycomb-Associated Non-Coding RNAs.
MA609776 - JP 2018138019-A/181702: Polycomb-Associated Non-Coding RNAs.
MA443870 - JP 2018138019-A/15796: Polycomb-Associated Non-Coding RNAs.
MA609777 - JP 2018138019-A/181703: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_fMLPpathway - fMLP induced chemokine gene expression in HMC-1 cells
h_calcineurinPathway - Effects of calcineurin in Keratinocyte Differentiation
h_gpcrPathway - Signaling Pathway from G-Protein Families
h_tcrPathway - T Cell Receptor Signaling Pathway
h_fcer1Pathway - Fc Epsilon Receptor I Signaling in Mast Cells
h_bcrPathway - BCR Signaling Pathway
h_nfatPathway - NFAT and Hypertrophy of the heart (Transcription in the broken heart)

Reactome (by CSHL, EBI, and GO)

Protein Q12968 (Reactome details) participates in the following event(s):

R-HSA-2025890 Calcineurin binds NFATC1,2,3
R-HSA-2730867 Translocation of CaN:CaM:NFAT to nucleus
R-HSA-2025928 Calcineurin activates NFAT
R-HSA-2871809 FCERI mediated Ca+2 mobilization
R-HSA-5607763 CLEC7A (Dectin-1) induces NFAT activation
R-HSA-1168372 Downstream signaling events of B Cell Receptor (BCR)
R-HSA-2454202 Fc epsilon receptor (FCERI) signaling
R-HSA-5607764 CLEC7A (Dectin-1) signaling
R-HSA-983705 Signaling by the B Cell Receptor (BCR)
R-HSA-168249 Innate Immune System
R-HSA-5621481 C-type lectin receptors (CLRs)
R-HSA-1280218 Adaptive Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000346183.1, ENST00000346183.2, ENST00000346183.3, ENST00000346183.4, ENST00000346183.5, ENST00000346183.6, ENST00000346183.7, NFAC3_HUMAN, NFAT4 , NM_173165, O75211, Q12968, Q14516, Q99840, Q99841, Q99842, uc317xic.1, uc317xic.2
UCSC ID: ENST00000346183.8_8
RefSeq Accession: NM_173165.3
Protein: Q12968 (aka NFAC3_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.