Tissue expression of SCN9A - Summary - The Human Protein Atlas

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SCN9A

TISSUE

CELL

PATHOLOGY

TISSUE ATLAS PRIMARY DATA

GENE/PROTEIN

Antibody validation

Dictionary


Tissue proteome

GENERAL INFORMATION
Gene name	SCN9A
Gene description	Sodium channel, voltage gated, type IX alpha subunit
Protein class	Disease related genes FDA approved drug targets Predicted membrane proteins Transporters Voltage-gated ion channels
Predicted localization	Membrane
Number of transcripts	5
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HUMAN PROTEIN ATLAS INFORMATION

RNA tissue category

HPA:	Tissue enhanced (testis)
GTEx:	Tissue enhanced (hypothalamus)
FANTOM5:	Mixed

Protein evidence

Evidence at protein level

Protein expression

Cytoplasmic expression in most tissues, including placenta testis and colon.

DATA RELIABILITY
Data reliability description	Antibody staining mainly consistent with RNA expression data.
Reliability score	Uncertain based on 1 antibody. CAB013679
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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 enhanced (testis)
GTEx dataset Organ Expression Alphabetical RNA tissue category: Tissue enhanced (hypothalamus)
FANTOM5 dataset Organ Expression Alphabetical RNA tissue category: Mixed

GENE INFORMATION
Gene name	SCN9A (HGNC Symbol)
Synonyms	ETHA, Nav1.7, NE-NA, NENA, PN1
Description	Sodium channel, voltage gated, type IX alpha subunit (HGNC Symbol)
Entrez gene summary	This gene encodes a voltage-gated sodium channel which plays a significant role in nociception signaling. Mutations in this gene have been associated with primary erythermalgia, channelopathy-associated insensitivity to pain, and paroxysmal extreme pain disorder. [provided by RefSeq, Aug 2009]
Chromosome	2
Cytoband	q24.3
Chromosome location (bp)	166195185 - 166375993
Protein evidence	Evidence at protein level (all genes)
Ensembl	ENSG00000169432 (version 83.38)
Entrez gene	6335
UniProt	Q15858 (UniProt - Evidence at protein level)
neXtProt	NX_Q15858
Antibodypedia	SCN9A antibodies

PROTEIN BROWSER

SCN9A-001	SCN9A-002	SCN9A-003	SCN9A-004	SCN9A-201

PROTEIN INFORMATION
Splice variant	UniProt	Protein class	Gene ontology	Length & mass	Signal peptide (predicted)	Transmembrane regions (predicted)
SCN9A-001 ENSP00000386306 ENST00000409672	Q15858 [Direct mapping] Sodium channel protein type 9 subunit alpha Show all	Transporters Transporter channels and pores 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 Disease related genes 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:0006954 [inflammatory response] GO:0009636 [response to toxic substance] GO:0009791 [post-embryonic development] GO:0016020 [membrane] GO:0019228 [neuronal action potential] GO:0031402 [sodium ion binding] GO:0034765 [regulation of ion transmembrane transport] GO:0035725 [sodium ion transmembrane transport] GO:0048266 [behavioral response to pain] GO:0055085 [transmembrane transport] GO:0086010 [membrane depolarization during action potential] Show all	1977 aa 225.2 kDa	No	>9
SCN9A-002 ENSP00000413212 ENST00000454569	A0A0C4DG82 [Direct mapping] Sodium channel protein type 9 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 4TM proteins predicted by MDM Show all	GO:0005216 [ion channel activity] GO:0005244 [voltage-gated ion 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	528 aa 60 kDa	No	4
SCN9A-003 ENSP00000393141 ENST00000452182	H7C064 [Direct mapping] Sodium channel protein type 9 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 4TM proteins predicted by MDM Show all	GO:0005216 [ion channel activity] GO:0005244 [voltage-gated ion 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	539 aa 61.1 kDa	No	4
SCN9A-004 ENSP00000386330 ENST00000409435	Q15858 [Direct mapping] Sodium channel protein type 9 subunit alpha Show all	Transporters Transporter channels and pores 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 Disease related genes 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	1988 aa 226.4 kDa	No	>9
SCN9A-201 ENSP00000304748 ENST00000303354	Q15858 [Direct mapping] Sodium channel protein type 9 subunit alpha Show all	Transporters Transporter channels and pores 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 Disease related genes 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	1988 aa 226.4 kDa	No	>9

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