Human Gene HTR3B (ENST00000260191.8) from GENCODE V44
  Description: Homo sapiens 5-hydroxytryptamine receptor 3B (HTR3B), transcript variant 1, mRNA. (from RefSeq NM_006028)
RefSeq Summary (NM_006028): The product of this gene belongs to the ligand-gated ion channel receptor superfamily. This gene encodes subunit B 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. It is not functional as a homomeric complex, but a pentaheteromeric complex with subunit A (HTR3A) displays the full functional features of this receptor. [provided by RefSeq, Aug 2011].
Gencode Transcript: ENST00000260191.8
Gencode Gene: ENSG00000149305.8
Transcript (Including UTRs)
   Position: hg38 chr11:113,904,796-113,949,079 Size: 44,284 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg38 chr11:113,904,934-113,946,137 Size: 41,204 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:113,904,796-113,949,079)mRNA (may differ from genome)Protein (441 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDMalacardsMGIneXtProtOMIM
PubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: 5HT3B_HUMAN
DESCRIPTION: RecName: Full=5-hydroxytryptamine receptor 3B; Short=5-HT3-B; Short=5-HT3B; AltName: Full=Serotonin receptor 3B; 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 the brain cortex, in the caudate nucleus, the hyppocampus, the thalamus and the amygdala. Detected in the kidney and testis as well as in monocytes of the spleen, small and large intestine, uterus, prostate, ovary and placenta.
PTM: N-glycosylation required for membrane localization.
MISCELLANEOUS: The HA-stretch region of HTR3B seems to confer increased conductance to HTR3A/HTR3B heteromers compared to that of HTR3A homomers.
SIMILARITY: Belongs to the ligand-gated ion channel (TC 1.A.9) family. 5-hydroxytryptamine receptor (TC 1.A.9.2) subfamily. HTR3B sub-subfamily.

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: HTR3B
Diseases sorted by gene-association score: gilles de la tourette syndrome (6)

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 1.01 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 3.07 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 -35.40138-0.257 Picture PostScript Text
3' UTR -1011.072942-0.344 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
IPR008132 - 5HT3_rcpt
IPR008134 - 5HT3_rcpt_B
IPR006202 - Neur_chan_lig-bd
IPR006201 - Neur_channel
IPR006029 - Neurotrans-gated_channel_TM

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

ModBase Predicted Comparative 3D Structure on O95264
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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 BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  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:0015276 ligand-gated ion channel activity
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:0005887 integral component of plasma membrane
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0045211 postsynaptic membrane
GO:1904602 serotonin-activated cation-selective channel complex


-  Descriptions from all associated GenBank mRNAs
  AK314268 - Homo sapiens cDNA, FLJ95021, Homo sapiens 5-hydroxytryptamine (serotonin) receptor 3B (HTR3B),mRNA.
AF169255 - Homo sapiens 5-hydroxytryptamine 3 receptor B subunit (5-HTR3B) mRNA, complete cds.
AF080582 - Homo sapiens 5-hydroxytryptamine 3 receptor B subunit precursor, mRNA, complete cds.
JD298397 - Sequence 279421 from Patent EP1572962.
JD482224 - Sequence 463248 from Patent EP1572962.
AB463385 - Synthetic construct DNA, clone: pF1KB7256, Homo sapiens HTR3B gene for 5-hydroxytryptamine (serotonin) receptor 3B, without stop codon, in Flexi system.
BC141515 - Synthetic construct Homo sapiens clone IMAGE:100014568, MGC:175314 5-hydroxytryptamine (serotonin) receptor 3B (HTR3B) mRNA, encodes complete protein.
AM293589 - Homo sapiens mRNA for 5-hydroxytryptamine receptor 3 subunit B (HTR3B gene).
JD185763 - Sequence 166787 from Patent EP1572962.
JD364473 - Sequence 345497 from Patent EP1572962.
JD097404 - Sequence 78428 from Patent EP1572962.
JD350934 - Sequence 331958 from Patent EP1572962.
JD364475 - Sequence 345499 from Patent EP1572962.
JD512484 - Sequence 493508 from Patent EP1572962.
JD545033 - Sequence 526057 from Patent EP1572962.
JD220458 - Sequence 201482 from Patent EP1572962.
JD135689 - Sequence 116713 from Patent EP1572962.
JD423116 - Sequence 404140 from Patent EP1572962.
JD537923 - Sequence 518947 from Patent EP1572962.
JD461424 - Sequence 442448 from Patent EP1572962.

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

Protein O95264 (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: 5HT3B_HUMAN, B0YJ23, ENST00000260191.1, ENST00000260191.2, ENST00000260191.3, ENST00000260191.4, ENST00000260191.5, ENST00000260191.6, ENST00000260191.7, NM_006028, O95264, Q0VJC3, uc001pok.1, uc001pok.2, uc001pok.3, uc001pok.4, uc001pok.5, uc001pok.6
UCSC ID: ENST00000260191.8
RefSeq Accession: NM_006028
Protein: O95264 (aka 5HT3B_HUMAN)

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