SCN9A (sodium voltage-gated channel alpha subunit 9) - Rat Genome Database

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Gene: SCN9A (sodium voltage-gated channel alpha subunit 9) Pan paniscus
Analyze
Symbol: SCN9A
Name: sodium voltage-gated channel alpha subunit 9
RGD ID: 11775773
Description: ENCODES a protein that exhibits sodium ion binding (ortholog); voltage-gated sodium channel activity (ortholog); INVOLVED IN behavioral response to formalin induced pain (ortholog); behavioral response to pain (ortholog); inflammatory response (ortholog); ASSOCIATED WITH absence epilepsy (ortholog); asphyxiating thoracic dystrophy (ortholog); asphyxiating thoracic dystrophy 1 (ortholog); FOUND IN voltage-gated sodium channel complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sodium channel protein type 9 subunit alpha; sodium channel, voltage-gated, type IX, alpha subunit
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21368,850,849 - 69,028,376 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B68,865,826 - 69,043,323 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B53,468,290 - 53,643,747 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B170,944,974 - 171,119,275 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B170,944,974 - 171,054,013 (-)Ensemblpanpan1.1panPan2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SCN9A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21368,850,849 - 69,028,376 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B68,865,826 - 69,043,323 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B53,468,290 - 53,643,747 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B170,944,974 - 171,119,275 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B170,944,974 - 171,054,013 (-)Ensemblpanpan1.1panPan2
SCN9A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382166,195,185 - 166,375,987 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2166,195,185 - 166,376,001 (-)EnsemblGRCh38hg38GRCh38
GRCh372167,051,695 - 167,232,497 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362166,759,941 - 166,876,560 (-)NCBINCBI36Build 36hg18NCBI36
Build 342166,880,315 - 166,993,821NCBI
Celera2160,661,621 - 160,841,488 (-)NCBICelera
Cytogenetic Map2q24.3NCBI
HuRef2158,932,999 - 159,113,694 (-)NCBIHuRef
CHM1_12167,057,860 - 167,238,542 (-)NCBICHM1_1
T2T-CHM13v2.02166,652,733 - 166,833,467 (-)NCBIT2T-CHM13v2.0
Scn9a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39266,310,424 - 66,465,456 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl266,310,424 - 66,465,306 (-)EnsemblGRCm39 Ensembl
GRCm38266,480,080 - 66,635,114 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl266,480,080 - 66,634,962 (-)EnsemblGRCm38mm10GRCm38
MGSCv37266,318,137 - 66,473,009 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36266,280,919 - 66,435,791 (-)NCBIMGSCv36mm8
Celera268,159,792 - 68,315,357 (-)NCBICelera
Cytogenetic Map2C1.3NCBI
cM Map239.13NCBI
Scn9a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8371,553,185 - 71,701,377 (-)NCBIGRCr8
mRatBN7.2351,145,148 - 51,293,342 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl351,145,146 - 51,293,516 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx354,489,348 - 54,634,230 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0363,072,952 - 63,217,828 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0360,852,549 - 60,997,783 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0352,583,953 - 52,664,209 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl352,583,951 - 52,664,209 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0359,207,264 - 59,286,961 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4348,438,725 - 48,518,893NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera350,729,098 - 50,808,151 (-)NCBICelera
Cytogenetic Map3q21NCBI
Scn9a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554497,923,801 - 8,017,569 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554497,858,156 - 8,017,569 (+)NCBIChiLan1.0ChiLan1.0
SCN9A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13611,287,358 - 11,382,897 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3611,290,625 - 11,383,255 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3611,431,905 - 11,590,849 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03611,421,333 - 11,580,725 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3611,422,611 - 11,517,286 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13611,503,582 - 11,662,869 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03611,475,664 - 11,634,434 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03611,588,422 - 11,748,250 (-)NCBIUU_Cfam_GSD_1.0
Scn9a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303128,464,705 - 128,638,949 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493646913,064,043 - 13,152,974 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493646913,063,971 - 13,153,030 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SCN9A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1572,748,705 - 72,912,382 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11572,745,706 - 72,912,352 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21581,262,169 - 81,433,272 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SCN9A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11051,711,446 - 51,898,856 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1051,714,931 - 51,829,621 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040147,611,948 - 147,803,960 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Scn9a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247873,997,887 - 4,085,449 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247873,995,319 - 4,148,230 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSPPAT00000044713   ⟹   ENSPPAP00000021909
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2B170,944,974 - 171,054,013 (-)Ensembl
RefSeq Acc Id: XM_055108701   ⟹   XP_054964676
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21368,850,849 - 68,958,297 (-)NCBI
NHGRI_mPanPan12B68,865,826 - 68,973,278 (-)NCBI
RefSeq Acc Id: XM_055108702   ⟹   XP_054964677
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21368,850,849 - 68,958,297 (-)NCBI
NHGRI_mPanPan12B68,865,826 - 68,973,277 (-)NCBI
RefSeq Acc Id: XM_055108703   ⟹   XP_054964678
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21368,850,849 - 69,028,376 (-)NCBI
NHGRI_mPanPan12B68,865,826 - 69,043,323 (-)NCBI
Protein Sequences
Protein RefSeqs XP_054964676 (Get FASTA)   NCBI Sequence Viewer  
  XP_054964677 (Get FASTA)   NCBI Sequence Viewer  
  XP_054964678 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000021909.1
Reference Protein Sequences
RefSeq Acc Id: ENSPPAP00000021909   ⟸   ENSPPAT00000044713
RefSeq Acc Id: XP_054964678   ⟸   XM_055108703
- Peptide Label: isoform X3
- UniProtKB: A0A2R9AXG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_054964676   ⟸   XM_055108701
- Peptide Label: isoform X1
- UniProtKB: A0A2R9AXG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_054964677   ⟸   XM_055108702
- Peptide Label: isoform X2
- UniProtKB: A0A2R9AXG5 (UniProtKB/TrEMBL)
Protein Domains
Ion transport   Sodium ion transport-associated   Voltage-gated Na+ ion channel cytoplasmic


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000034120 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000044713.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.70 UniProtKB/TrEMBL
  1.20.120.350 UniProtKB/TrEMBL
  EF-hand UniProtKB/TrEMBL
  iswi atpase UniProtKB/TrEMBL
InterPro Ion_trans_dom UniProtKB/TrEMBL
  IQ_motif_EF-hand-BS UniProtKB/TrEMBL
  Na_channel_asu UniProtKB/TrEMBL
  Na_chnl_inactivation_gate UniProtKB/TrEMBL
  Na_trans_assoc UniProtKB/TrEMBL
  Na_trans_cytopl UniProtKB/TrEMBL
  VGCC_Ca_Na UniProtKB/TrEMBL
  Volt_channel_dom_sf UniProtKB/TrEMBL
KEGG Report pps:100988842 UniProtKB/TrEMBL
NCBI Gene SCN9A ENTREZGENE
PANTHER PTHR10037 UniProtKB/TrEMBL
  PTHR10037:SF221 UniProtKB/TrEMBL
Pfam Ion_trans UniProtKB/TrEMBL
  Na_trans_assoc UniProtKB/TrEMBL
  Na_trans_cytopl UniProtKB/TrEMBL
PRINTS NACHANNEL UniProtKB/TrEMBL
SMART SM00015 UniProtKB/TrEMBL
Superfamily-SCOP Voltage-gated potassium channels UniProtKB/TrEMBL
UniProt A0A2R9AXG5 ENTREZGENE, UniProtKB/TrEMBL