SCN1B protein expression summary - The Human Protein Atlas

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SCN1B

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HUMAN PROTEIN ATLAS SUMMARYⁱ General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Proteinⁱ Full gene name according to HGNC.	Sodium voltage-gated channel beta subunit 1
Gene nameⁱ Official gene symbol, which is typically a short form of the gene name, according to HGNC.	SCN1B
Tissue specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on a combination of data from HPA, GTEX and FANTOM5. The categories include: tissue enriched, group enriched, tissue enhanced, low tissue specificity and not detected. Read more	Group enriched (brain, skeletal muscle)
Single cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Cell type enhanced (Bipolar cells, Hofbauer cells, Ito cells, Kupffer cells)
Blood specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed blood cell samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Immune cell enhanced (basophil)
Brain specificityⁱ The regional specificity category is based on mRNA expression levels in the analyzed brain samples, grouped into 10 main brain regions and calculated for the three different species. The human brain expression profile is based on a combination of data from GTEX and FANTOM5. The specificity categories include: regionally enriched, group enriched, regionally enhanced, low regional specificity and not detected. The classification rules are the same used for the tissue specificity category. Read more	Low human brain regional specificity
Cancer prognostic summary	Prognostic marker in pancreatic cancer (favorable)
Predicted locationⁱ All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions. Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached. Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s). The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location. Read more	Intracellular, Membrane (different isoforms)
Protein function (UniProt)ⁱ Useful information about the protein provided by UniProt.	Regulatory subunit of multiple voltage-gated sodium channel complexes that play important roles in excitable membranes in brain, heart and skeletal muscle. Enhances the presence of the pore-forming alpha subunit at the cell surface and modulates channel gating characteristics and the rate of channel inactivation. Modulates the activity of multiple pore-forming alpha subunits, such as SCN1A, SCN2A, SCN3A, SCN4A, SCN5A and SCN10A.... show less
Molecular function (UniProt)ⁱ Keywords assigned by UniProt to proteins due to their particular molecular function.	Ion channel, Sodium channel, Voltage-gated channel
Biological process (UniProt)ⁱ Keywords assigned by UniProt to proteins because they are involved in a particular biological process.	Cell adhesion, Ion transport, Sodium transport, Transport
Disease involvementⁱ Disease related keywords assigned by UniProt combined with Cancer-related genes and FDA approved drug targets Read more	Atrial fibrillation, Brugada syndrome, Disease mutation, Epilepsy, FDA approved drug targets
Ligand (UniProt)ⁱ Keywords assigned by UniProt to proteins because they bind, are associated with, or whose activity is dependent of some molecule.	Sodium
Gene summary (Entrez)ⁱ Useful information about the gene from Entrez	Voltage-gated sodium channels are heteromeric proteins that function in the generation and propagation of action potentials in muscle and neuronal cells. They are composed of one alpha and two beta subunits, where the alpha subunit provides channel activity and the beta-1 subunit modulates the kinetics of channel inactivation. This gene encodes a sodium channel beta-1 subunit. Mutations in this gene result in generalized epilepsy with febrile seizures plus, Brugada syndrome 5, and defects in cardiac conduction. Multiple transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Oct 2009]... show less

TISSUE ATLASⁱ Summary of data presented in the Tissue Atlas and representative images of protein expression (left) and mRNA expression (right). The images are clickable and will redirect to more Tissue Atlas data. The Tissue Atlas contains information regarding the expression profiles of protein-coding genes in normal human tissue, both on the mRNA and protein level. The protein expression data is derived from antibody-based protein profiling using immunohistochemistry. Read more

Tissue specificity (RNA)ⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on a combination of data from HPA, GTEX and FANTOM5. The categories include: tissue enriched, group enriched, tissue enhanced, low tissue specificity and not detected. Read more	Group enriched (brain, skeletal muscle)
Tissue distribution (RNA)ⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on a combination of data from HPA, GTEX and FANTOM5. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in many

SINGLE CELL TYPE ATLASⁱ Summary of data presented in the Cell Type Atlas and an interactive image showing mRNA expression in cell type groups e.g. epithelial cells and germ cells. The image is clickable and will redirect to more Cell Type Atlas data. The Cell Type Atlas contains information about single cell type RNA expression based on scRNAseq of human tissues. The data also covers transcriptomics analysis of human blood and cultured cell lines. Read more

Cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Cell type enhanced (Bipolar cells, Hofbauer cells, Ito cells, Kupffer cells)
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines.	Cell line enhanced (A549, EFO-21, TIME)

PATHOLOGY ATLASⁱ Summary of data presented in the Pathology Atlas , with representative images of protein expression in cancer (left) and correlation between mRNA expression and patient survival (right). Images are clickable and redirect to pages with more Pathology Atlas data. The Pathology Atlas contains mRNA and protein expression data from 17 different forms of human cancer, as well as correlation analysis of mRNA expression and patient survival. The protein expression data is derived from antibody-based protein profiling using immunohistochemistry. Read more
Pancreatic cancer p<0.001
Prognostic summary	Prognostic marker in pancreatic cancer (favorable)
Cancer specificity (RNA)ⁱ Specificity of RNA expression in 17 cancer types is categorized as either cancer enriched, group enriched, cancer enhanced, low cancer specificity and not detected. Read more	Low cancer specificity
Cancer distribution (RNA)ⁱ Distribution of RNA expression in 17 cancer types is categorized as either detected in single, detected in some, detected in many, detected in all, or not detected. Read more	Detected in all

BRAIN ATLASⁱ Summary of data presented in the Brain Atlas and a representative image of mRNA expression in the human brain. The image is clickable and will redirect to more Brain Atlas data. The Brain Atlas explores the protein expression in the mammalian brain by visualization and integration of data from three mammalian species (human, pig and mouse). Transcriptomics data combined with affinity-based protein in situ localization down to single cell level is available in a brain-centric sub atlas of the Human Protein Atlas. Read more

Human regional specificityⁱ The regional specificity category is based on mRNA expression levels in the analyzed brain samples, grouped into 10 main brain regions and calculated for the three different species. The human brain expression profile is based on a combination of data from GTEX and FANTOM5. The specificity categories include: regionally enriched, group enriched, regionally enhanced, low regional specificity and not detected. The classification rules are the same used for the tissue specificity category. Read more	Low region specificity
Pig regional specificityⁱ The regional specificity category is based on mRNA expression levels in the analyzed brain samples, grouped into 10 main brain regions and calculated for the three different species. The human brain expression profile is based on a combination of data from GTEX and FANTOM5. The specificity categories include: regionally enriched, group enriched, regionally enhanced, low regional specificity and not detected. The classification rules are the same used for the tissue specificity category. Read more	Low region specificity
Mouse regional specificityⁱ The regional specificity category is based on mRNA expression levels in the analyzed brain samples, grouped into 10 main brain regions and calculated for the three different species. The human brain expression profile is based on a combination of data from GTEX and FANTOM5. The specificity categories include: regionally enriched, group enriched, regionally enhanced, low regional specificity and not detected. The classification rules are the same used for the tissue specificity category. Read more	Low region specificity

BLOOD ATLASⁱ Summary of data presented in the Blood Atlas and a representative image of mRNA expression in immune cells in the blood. The image is clickable and will redirect to more Blood Atlas data. The Blood Atlas contains single cell type RNA information covering various immune cells in the blood, e.g. B-cells and granulocytes. Analysis of the human secretome (including annotation of the genes predicted to be actively secreted to human blood) and proteins detected in human blood are also presented. Read more

Secretome annotationⁱ All genes with at least one predicted secreted isoform have been annotated and classified with the aim to determine if the corresponding protein(s) are: secreted into blood locally secreted or actually being attached to membrane or retained in intracellular locations like mitochondria, endoplasmatic reticulum (ER), Golgi apparatus or lysosomes. Read more	Intracellular and membrane
Immune cell specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Cell type enhanced (basophil)
Detected in blood by immunoassayⁱ The blood-based immunoassay category applies to actively secreted proteins and is based on plasma or serum protein concentrations established with enzyme-linked immunosorbent assays, compiled from a literature search. The categories include: detected and not detected, where detection refers to a concentration found in the literature search. Read more	No (not applicable)
Detected in blood by mass spectrometryⁱ Detection or not of the gene in blood, based on spectral count estimations from a publicly available mass spectrometry-based plasma proteomics data set obtained from the PeptideAtlas.	No

CELL ATLASⁱ Summary of data presented in the Cell Atlas and a representative image of subcellular localization. The Cell Atlas provides RNA expression data derived from RNA sequencing of a large panel of cell lines and protein localization data derived from antibody-based profiling by immunofluorescence confocal microscopy, using a subset of cell lines selected based on RNA expression. Read more

Main locationⁱ Main subcellular location(s) and reliability score(s) for the encoded protein(s) in human cells. The main location(s) may be characterized by presence in all tested cell lines and/or ihigher staining intensity compared to the potential additional location(s). If available, links to overrepresentation analyses in Reactome, a free, open-source, curated and peer reviewed biological pathway database, are provided. An analysis is done for the corresponding gene set of the proteome localizing to the main and additional locations of the protein on this page, respectively. Read more	Not available
Cell cycle dependencyⁱ Cell-cycle dependance of single-cell varations in RNA and/or protein expression as observed in an additional assay for characterizing single-cell varations. "NA" indicates a lack of such data. Read more	NA

GENE INFORMATIONⁱ Gene information from Ensembl and Entrez, as well as links to available gene identifiers are displayed here. Information was retrieved from Ensembl if not indicated otherwise.
Gene name	SCN1B
Synonyms
Description	Sodium voltage-gated channel beta subunit 1 (HGNC Symbol)
Chromosome	19
Cytoband	q13.11
Chromosome location (bp)	35030466 - 35040449
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	6
Protein evidence	Evidence at protein level (all genes)
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes FDA approved drug targets
Ensembl	ENSG00000105711 (version 92.38)
Entrez gene	6324
UniProt	Q07699 (UniProt - Evidence at protein level)
neXtProt	NX_Q07699
Antibodypedia	SCN1B antibodies

PROTEIN BROWSERⁱ

SCN1B-201

SCN1B-202

SCN1B-203

SCN1B-204

SCN1B-206

SCN1B-208

PROTEIN INFORMATIONⁱ The protein information section displays alternative protein-coding transcripts (splice variants) encoded by this gene according to the Ensembl database. The ENSP identifier links to the Ensembl website protein summary, while the ENST identifier links to the Ensembl website transcript summary for the selected splice variant. The data in the UniProt column can be expanded to show links to all matching UniProt identifiers for this protein. The protein classes assigned to this protein are shown if expanding the data in the protein class column. Parent protein classes are in bold font and subclasses are listed under the parent class. The Gene Ontology terms assigned to this protein are listed if expanding the Gene ontology column. The length of the protein (amino acid residues according to Ensembl), molecular mass (kDalton), predicted signal peptide (according to a majority of the signal peptide predictors SPOCTOPUS, SignalP 4.0, and Phobius) and the number of predicted transmembrane region(s) (according to MDM) are also reported.
Splice variant	UniProt	Protein class	Gene ontology	Length & mass	Signal peptide (predicted)	Transmembrane regions (predicted)
SCN1B-201 ENSP00000262631 ENST00000262631	Q07699 [Direct mapping] Sodium channel subunit beta-1 Show all	Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 1TM proteins predicted by MDM Disease related genes FDA approved drug targets Small molecule drugs Mapped to neXtProt neXtProt - Evidence at protein level Protein evidence (Peptideatlas) Show all	GO:0001518 [voltage-gated sodium channel complex] GO:0005244 [voltage-gated ion channel activity] GO:0005248 [voltage-gated sodium channel activity] GO:0005272 [sodium channel activity] GO:0005515 [protein binding] GO:0005576 [extracellular region] GO:0005886 [plasma membrane] GO:0006811 [ion transport] GO:0006814 [sodium ion transport] GO:0007155 [cell adhesion] GO:0007268 [chemical synaptic transmission] GO:0007411 [axon guidance] GO:0010765 [positive regulation of sodium ion transport] GO:0010976 [positive regulation of neuron projection development] GO:0014704 [intercalated disc] GO:0016020 [membrane] GO:0016021 [integral component of membrane] GO:0017080 [sodium channel regulator activity] GO:0019227 [neuronal action potential propagation] GO:0019871 [sodium channel inhibitor activity] GO:0021966 [corticospinal neuron axon guidance] GO:0030315 [T-tubule] GO:0033268 [node of Ranvier] GO:0034765 [regulation of ion transmembrane transport] GO:0035725 [sodium ion transmembrane transport] GO:0040011 [locomotion] GO:0051899 [membrane depolarization] GO:0060048 [cardiac muscle contraction] GO:0060307 [regulation of ventricular cardiac muscle cell membrane repolarization] GO:0060371 [regulation of atrial cardiac muscle cell membrane depolarization] GO:0061337 [cardiac conduction] GO:0086002 [cardiac muscle cell action potential involved in contraction] GO:0086006 [voltage-gated sodium channel activity involved in cardiac muscle cell action potential] GO:0086012 [membrane depolarization during cardiac muscle cell action potential] GO:0086047 [membrane depolarization during Purkinje myocyte cell action potential] GO:0086062 [voltage-gated sodium channel activity involved in Purkinje myocyte action potential] GO:0086091 [regulation of heart rate by cardiac conduction] GO:2000649 [regulation of sodium ion transmembrane transporter activity] Show all	218 aa 24.7 kDa	Yes	1
SCN1B-202 ENSP00000396915 ENST00000415950	Q07699 [Direct mapping] Sodium channel subunit beta-1 Show all	Secreted proteins predicted by MDSEC SignalP predicted secreted proteins Phobius predicted secreted proteins SPOCTOPUS predicted secreted proteins Predicted intracellular proteins Disease related genes FDA approved drug targets Small molecule drugs Mapped to neXtProt neXtProt - Evidence at protein level Protein evidence (Peptideatlas) Show all	GO:0001518 [voltage-gated sodium channel complex] GO:0002028 [regulation of sodium ion transport] GO:0005244 [voltage-gated ion channel activity] GO:0005248 [voltage-gated sodium channel activity] GO:0005272 [sodium channel activity] GO:0005515 [protein binding] GO:0005576 [extracellular region] GO:0005886 [plasma membrane] GO:0006811 [ion transport] GO:0006814 [sodium ion transport] GO:0007155 [cell adhesion] GO:0007268 [chemical synaptic transmission] GO:0007411 [axon guidance] GO:0010765 [positive regulation of sodium ion transport] GO:0010976 [positive regulation of neuron projection development] GO:0014704 [intercalated disc] GO:0016020 [membrane] GO:0016021 [integral component of membrane] GO:0017080 [sodium channel regulator activity] GO:0019227 [neuronal action potential propagation] GO:0019871 [sodium channel inhibitor activity] GO:0021966 [corticospinal neuron axon guidance] GO:0030315 [T-tubule] GO:0033268 [node of Ranvier] GO:0034706 [sodium channel complex] GO:0034765 [regulation of ion transmembrane transport] GO:0035725 [sodium ion transmembrane transport] GO:0040011 [locomotion] GO:0046684 [response to pyrethroid] GO:0051899 [membrane depolarization] GO:0060048 [cardiac muscle contraction] GO:0060307 [regulation of ventricular cardiac muscle cell membrane repolarization] GO:0060371 [regulation of atrial cardiac muscle cell membrane depolarization] GO:0061337 [cardiac conduction] GO:0086002 [cardiac muscle cell action potential involved in contraction] GO:0086006 [voltage-gated sodium channel activity involved in cardiac muscle cell action potential] GO:0086012 [membrane depolarization during cardiac muscle cell action potential] GO:0086047 [membrane depolarization during Purkinje myocyte cell action potential] GO:0086062 [voltage-gated sodium channel activity involved in Purkinje myocyte action potential] GO:0086091 [regulation of heart rate by cardiac conduction] GO:2000649 [regulation of sodium ion transmembrane transporter activity] Show all	268 aa 30.4 kDa	Yes	0
SCN1B-203 ENSP00000468848 ENST00000595652	B4DI92 [Direct mapping] Sodium channel subunit beta-1; cDNA FLJ55064, moderately similar to Sodium channel beta-1 subunit Show all	Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 1TM proteins predicted by MDM Show all	GO:0001518 [voltage-gated sodium channel complex] GO:0006814 [sodium ion transport] GO:0016020 [membrane] GO:0016021 [integral component of membrane] GO:0017080 [sodium channel regulator activity] GO:0065009 [regulation of molecular function] Show all	147 aa 16.2 kDa	Yes	1
SCN1B-204 ENSP00000492247 ENST00000596348	A0A1W2PR05 [Direct mapping] Sodium channel subunit beta-1 Show all	Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 1TM proteins predicted by MDM Show all	GO:0001518 [voltage-gated sodium channel complex] GO:0006814 [sodium ion transport] GO:0016020 [membrane] GO:0016021 [integral component of membrane] GO:0017080 [sodium channel regulator activity] GO:0065009 [regulation of molecular function] Show all	185 aa 21.5 kDa	No	1
SCN1B-206 ENSP00000492022 ENST00000638536	Q07699 [Direct mapping] Sodium channel subunit beta-1 Show all	Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 1TM proteins predicted by MDM Disease related genes FDA approved drug targets Small molecule drugs Mapped to neXtProt neXtProt - Evidence at protein level Protein evidence (Peptideatlas) Show all	GO:0001518 [voltage-gated sodium channel complex] GO:0005244 [voltage-gated ion channel activity] GO:0005248 [voltage-gated sodium channel activity] GO:0005272 [sodium channel activity] GO:0005515 [protein binding] GO:0005576 [extracellular region] GO:0005886 [plasma membrane] GO:0006811 [ion transport] GO:0006814 [sodium ion transport] GO:0007155 [cell adhesion] GO:0007268 [chemical synaptic transmission] GO:0007411 [axon guidance] GO:0010765 [positive regulation of sodium ion transport] GO:0010976 [positive regulation of neuron projection development] GO:0014704 [intercalated disc] GO:0016020 [membrane] GO:0016021 [integral component of membrane] GO:0017080 [sodium channel regulator activity] GO:0019227 [neuronal action potential propagation] GO:0019871 [sodium channel inhibitor activity] GO:0021966 [corticospinal neuron axon guidance] GO:0030315 [T-tubule] GO:0033268 [node of Ranvier] GO:0034765 [regulation of ion transmembrane transport] GO:0035725 [sodium ion transmembrane transport] GO:0040011 [locomotion] GO:0051899 [membrane depolarization] GO:0060048 [cardiac muscle contraction] GO:0060307 [regulation of ventricular cardiac muscle cell membrane repolarization] GO:0060371 [regulation of atrial cardiac muscle cell membrane depolarization] GO:0061337 [cardiac conduction] GO:0086002 [cardiac muscle cell action potential involved in contraction] GO:0086006 [voltage-gated sodium channel activity involved in cardiac muscle cell action potential] GO:0086012 [membrane depolarization during cardiac muscle cell action potential] GO:0086047 [membrane depolarization during Purkinje myocyte cell action potential] GO:0086062 [voltage-gated sodium channel activity involved in Purkinje myocyte action potential] GO:0086091 [regulation of heart rate by cardiac conduction] GO:2000649 [regulation of sodium ion transmembrane transporter activity] Show all	218 aa 24.7 kDa	Yes	1
SCN1B-208 ENSP00000492655 ENST00000640135	A0A1W2PS68 [Direct mapping] Sodium channel subunit beta-1 Show all	Predicted intracellular proteins Intracellular proteins predicted by MDM and MDSEC Show all	GO:0001518 [voltage-gated sodium channel complex] GO:0006814 [sodium ion transport] GO:0017080 [sodium channel regulator activity] GO:0065009 [regulation of molecular function] Show all	235 aa 27.2 kDa	No	0

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The Human Protein Atlas

The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg Foundation.