Human Gene HTR3C (ENST00000318351.2) from GENCODE V44
  Description: Homo sapiens 5-hydroxytryptamine receptor 3C (HTR3C), mRNA. (from RefSeq NM_130770)
RefSeq Summary (NM_130770): The product of this gene belongs to the ligand-gated ion channel receptor superfamily. This gene encodes subunit C of the type 3 receptor for 5-hydroxytryptamine (serotonin), a biogenic hormone that functions as a neurotransmitter, a hormone, and a mitogen. This receptor causes fast, depolarizing responses in neurons after activation. Genes encoding subunits C, D and E form a cluster on chromosome 3. [provided by RefSeq, Jul 2008].
Gencode Transcript: ENST00000318351.2
Gencode Gene: ENSG00000178084.2
Transcript (Including UTRs)
   Position: hg38 chr3:184,053,047-184,060,673 Size: 7,627 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg38 chr3:184,053,081-184,060,352 Size: 7,272 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:184,053,047-184,060,673)mRNA (may differ from genome)Protein (447 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: 5HT3C_HUMAN
DESCRIPTION: RecName: Full=5-hydroxytryptamine receptor 3C; Short=5-HT3-C; Short=5-HT3C; AltName: Full=Serotonin receptor 3C; Flags: Precursor;
FUNCTION: This is one of the several different receptors for 5- hydroxytryptamine (serotonin), a biogenic hormone that functions as a neurotransmitter, a hormone, and a mitogen. This receptor is a ligand-gated ion channel, which when activated causes fast, depolarizing responses. It is a cation-specific, but otherwise relatively nonselective, ion channel.
SUBUNIT: Forms a pentaheteromeric complex with HTR3A. Not functional as a homomeric complex.
SUBCELLULAR LOCATION: Cell membrane; Multi-pass membrane protein. Note=Presumably retained within the endoplasmic reticulum unless complexed with HTR3A.
TISSUE SPECIFICITY: Expressed in many tissues including adult brain, colon, intestine, lung, muscle and stomach as well as fetal colon and kidney.
SIMILARITY: Belongs to the ligand-gated ion channel (TC 1.A.9) family. 5-hydroxytryptamine receptor (TC 1.A.9.2) subfamily. HTR3C sub-subfamily.

-  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.
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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


-  MalaCards Disease Associations
  MalaCards Gene Search: HTR3C
Diseases sorted by gene-association score: primary angle-closure glaucoma (10), esophagus adenocarcinoma (4)

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 0.95 RPKM in Lung
Total median expression: 1.58 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 -1.1034-0.032 Picture PostScript Text
3' UTR -84.80321-0.264 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
IPR006202 - Neur_chan_lig-bd
IPR006201 - Neur_channel
IPR006029 - Neurotrans-gated_channel_TM
IPR018000 - Neurotransmitter_ion_chnl_CS

Pfam Domains:
PF02931 - Neurotransmitter-gated ion-channel ligand binding domain
PF02932 - Neurotransmitter-gated ion-channel transmembrane region

ModBase Predicted Comparative 3D Structure on Q8WXA8
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-  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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004888 transmembrane signaling receptor activity
GO:0005216 ion channel activity
GO:0005230 extracellular ligand-gated ion channel activity
GO:0005515 protein binding
GO:0022850 serotonin-gated cation channel activity

Biological Process:
GO:0006811 ion transport
GO:0007165 signal transduction
GO:0007210 serotonin receptor signaling pathway
GO:0034220 ion transmembrane transport

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AF459285 - Homo sapiens 5-hydroxytryptamine receptor 3 subunit C (HTR3C) mRNA, complete cds.
BC131799 - Homo sapiens 5-hydroxytryptamine (serotonin) receptor 3, family member C, mRNA (cDNA clone MGC:156912 IMAGE:40069671), complete cds.
JD103594 - Sequence 84618 from Patent EP1572962.
JD079341 - Sequence 60365 from Patent EP1572962.
KJ895760 - Synthetic construct Homo sapiens clone ccsbBroadEn_05154 HTR3C gene, encodes complete protein.
JD161157 - Sequence 142181 from Patent EP1572962.
JD201682 - Sequence 182706 from Patent EP1572962.
JD458841 - Sequence 439865 from Patent EP1572962.
JD130178 - Sequence 111202 from Patent EP1572962.
JD307429 - Sequence 288453 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q8WXA8 (Reactome details) participates in the following event(s):

R-HSA-975311 HTR3 pentamer:5HT transports Na+,K+, and Ca2+
R-HSA-112314 Neurotransmitter receptors and postsynaptic signal transmission
R-HSA-112315 Transmission across Chemical Synapses
R-HSA-112316 Neuronal System

-  Other Names for This Gene
  Alternate Gene Symbols: 5HT3C_HUMAN, A2RRR5, ENST00000318351.1, NM_130770, Q8WXA8, uc003fmk.1, uc003fmk.2, uc003fmk.3, uc003fmk.4, uc003fmk.5
UCSC ID: ENST00000318351.2
RefSeq Accession: NM_130770
Protein: Q8WXA8 (aka 5HT3C_HUMAN)
CCDS: CCDS3250.1

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