Tissue expression of SCN3A - Summary - The Human Protein Atlas

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SCN3A

TISSUE

CELL

CANCER

TISSUE ATLAS PRIMARY DATA

GENE/PROTEIN

Antibody validation

Dictionary


Tissue proteome

GENERAL INFORMATION
Gene name	SCN3A
Gene description	Sodium channel, voltage gated, type III alpha subunit
Protein class	FDA approved drug targets Plasma proteins Predicted membrane proteins Voltage-gated ion channels
Predicted localization	Membrane
Number of transcripts	5
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HUMAN PROTEIN ATLAS INFORMATION

RNA tissue category

HPA:	Tissue enriched (cerebral cortex)
GTEx:	Tissue enhanced (hypothalamus)
FANTOM5:	Group enriched (cerebellum, caudate, pituitary gland, hippocampus, brain)

Protein evidence

Evidence at protein level

Protein expression

Cytoplasmic expression in several tissues, including neurons.

DATA RELIABILITY
Data reliability description	Antibody staining mainly not consistent with RNA expression data. Presumed off target binding observed and disregarded.
Reliability score	Approved based on 1 antibody. HPA035396
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RNA AND PROTEIN EXPRESSION SUMMARY

RNA expression (TPM)

Protein expression (score)

Brain

Cerebral cortex

Hippocampus

N/A

Caudate

N/A

Cerebellum

N/A

Endocrine tissues

Thyroid gland

Parathyroid gland

Adrenal gland

Bone marrow & immune system

Appendix

Bone marrow

Lymph node

Tonsil

Spleen

Muscle tissues

Heart muscle

Skeletal muscle

Smooth muscle

Lung

Nasopharynx

N/A

Bronchus

N/A

Lung

Liver & gallbladder

Liver

Gallbladder

Pancreas

Pancreas

Gastrointestinal tract

Oral mucosa

N/A

Salivary gland

Esophagus

Stomach

Duodenum

Small intestine

Colon

Rectum

Kidney & urinary bladder

Kidney

Urinary bladder

Male tissues

Testis

Epididymis

Prostate

Seminal vesicle

Female tissues

Breast

Vagina

N/A

Cervix, uterine

Endometrium

Fallopian tube

Ovary

Placenta

Adipose & soft tissue

Adipose tissue

Soft tissue

N/A

Skin

Skin

Cerebral cortex

PROTEIN EXPRESSION OVERVIEW
Organ Expression Alphabetical

RNA EXPRESSION OVERVIEW
HPA dataset Organ Expression Alphabetical RNA tissue category: Tissue enriched (cerebral cortex)
GTEx dataset Organ Expression Alphabetical RNA tissue category: Tissue enhanced (hypothalamus)
FANTOM5 dataset Organ Expression Alphabetical RNA tissue category: Group enriched (cerebellum, caudate, pituitary gland, hippocampus, brain)

GENE INFORMATION
Gene name	SCN3A (HGNC Symbol)
Synonyms	Nav1.3
Description	Sodium channel, voltage gated, type III alpha subunit (HGNC Symbol)
Entrez gene summary	Voltage-gated sodium channels are transmembrane glycoprotein complexes composed of a large alpha subunit with 24 transmembrane domains and one or more regulatory beta subunits. They are responsible for the generation and propagation of action potentials in neurons and muscle. This gene encodes one member of the sodium channel alpha subunit gene family, and is found in a cluster of five alpha subunit genes on chromosome 2. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
Chromosome	2
Cytoband	q24.3
Chromosome location (bp)	165087522 - 165204067
Protein evidence	Evidence at protein level (all genes)
Ensembl	ENSG00000153253 (version 83.38)
Entrez gene	6328
UniProt	Q9NY46 (UniProt - Evidence at protein level)
neXtProt	NX_Q9NY46
Antibodypedia	SCN3A antibodies

PROTEIN BROWSER

SCN3A-001	SCN3A-002	SCN3A-003	SCN3A-004	SCN3A-201

PROTEIN INFORMATION
Splice variant	UniProt	Protein class	Gene ontology	Length & mass	Signal peptide (predicted)	Transmembrane regions (predicted)
SCN3A-001 ENSP00000283254 ENST00000283254	Q9NY46 [Direct mapping] Sodium channel protein type 3 subunit alpha Show all	Voltage-gated ion channels Voltage-Gated Sodium Channels Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM 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 >9TM proteins predicted by MDM Plasma proteins FDA approved drug targets Small molecule drugs Protein evidence (Kim et al 2014) Show all	GO:0001518 [voltage-gated sodium channel complex] GO:0005216 [ion channel activity] GO:0005248 [voltage-gated sodium channel activity] GO:0005515 [protein binding] GO:0005516 [calmodulin binding] GO:0005737 [cytoplasm] GO:0005886 [plasma membrane] GO:0006811 [ion transport] GO:0006814 [sodium ion transport] GO:0007399 [nervous system development] GO:0009611 [response to wounding] GO:0016020 [membrane] GO:0019228 [neuronal action potential] GO:0019233 [sensory perception of pain] GO:0030424 [axon] GO:0031402 [sodium ion binding] GO:0034765 [regulation of ion transmembrane transport] GO:0035725 [sodium ion transmembrane transport] GO:0043025 [neuronal cell body] GO:0046684 [response to pyrethroid] GO:0055085 [transmembrane transport] GO:0071236 [cellular response to antibiotic] GO:0086010 [membrane depolarization during action potential] Show all	2000 aa 226.3 kDa	No	>9
SCN3A-002 ENSP00000386726 ENST00000409101	Q9NY46 [Direct mapping] Sodium channel protein type 3 subunit alpha Show all	Voltage-gated ion channels Voltage-Gated Sodium Channels 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 >9TM proteins predicted by MDM Plasma proteins FDA approved drug targets Small molecule drugs Protein evidence (Kim et al 2014) Show all	GO:0001518 [voltage-gated sodium channel complex] GO:0005216 [ion channel activity] GO:0005248 [voltage-gated sodium channel activity] GO:0005515 [protein binding] GO:0005886 [plasma membrane] GO:0006811 [ion transport] GO:0006814 [sodium ion transport] GO:0016020 [membrane] GO:0019228 [neuronal action potential] GO:0034765 [regulation of ion transmembrane transport] GO:0035725 [sodium ion transmembrane transport] GO:0055085 [transmembrane transport] GO:0086010 [membrane depolarization during action potential] Show all	1951 aa 221.5 kDa	No	>9
SCN3A-003 ENSP00000391569 ENST00000453007	C9JBM7 [Direct mapping] Sodium channel protein type 3 subunit alpha 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:0005216 [ion channel activity] GO:0005248 [voltage-gated sodium channel activity] GO:0005886 [plasma membrane] GO:0006811 [ion transport] GO:0016020 [membrane] GO:0016021 [integral component of membrane] GO:0019228 [neuronal action potential] GO:0034765 [regulation of ion transmembrane transport] GO:0035725 [sodium ion transmembrane transport] GO:0055085 [transmembrane transport] GO:0086010 [membrane depolarization during action potential] Show all	200 aa 22.9 kDa	No	1
SCN3A-004 ENSP00000403348 ENST00000440431	E7EUE6 [Direct mapping] Sodium channel protein type 3 subunit alpha 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 >9TM proteins predicted by MDM Show all	GO:0001518 [voltage-gated sodium channel complex] GO:0005216 [ion channel activity] GO:0005248 [voltage-gated sodium channel activity] GO:0005886 [plasma membrane] GO:0006811 [ion transport] GO:0006814 [sodium ion transport] GO:0016020 [membrane] GO:0019228 [neuronal action potential] GO:0034765 [regulation of ion transmembrane transport] GO:0035725 [sodium ion transmembrane transport] GO:0055085 [transmembrane transport] GO:0086010 [membrane depolarization during action potential] Show all	1364 aa 154.5 kDa	No	>9
SCN3A-201 ENSP00000353206 ENST00000360093	Q9NY46 [Direct mapping] Sodium channel protein type 3 subunit alpha Show all	Voltage-gated ion channels Voltage-Gated Sodium Channels Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM 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 >9TM proteins predicted by MDM Plasma proteins FDA approved drug targets Small molecule drugs Show all	GO:0001518 [voltage-gated sodium channel complex] GO:0005216 [ion channel activity] GO:0005248 [voltage-gated sodium channel activity] GO:0005515 [protein binding] GO:0005886 [plasma membrane] GO:0006811 [ion transport] GO:0006814 [sodium ion transport] GO:0016020 [membrane] GO:0019228 [neuronal action potential] GO:0034765 [regulation of ion transmembrane transport] GO:0035725 [sodium ion transmembrane transport] GO:0055085 [transmembrane transport] GO:0086010 [membrane depolarization during action potential] Show all	2000 aa 226.3 kDa	No	>9

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The Human Protein Atlas

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