SCN1B (sodium voltage-gated channel beta subunit 1) - Rat Genome Database

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Gene: SCN1B (sodium voltage-gated channel beta subunit 1) Canis lupus familiaris
Analyze
Symbol: SCN1B
Name: sodium voltage-gated channel beta subunit 1
RGD ID: 12317220
Description: ENCODES a protein that exhibits sodium channel regulator activity (ortholog); INVOLVED IN axon guidance (ortholog); corticospinal neuron axon guidance (ortholog); locomotion (ortholog); PARTICIPATES IN alfentanil pharmacodynamics pathway; bupivacaine pharmacodynamics pathway; buprenorphine pharmacodynamics pathway; ASSOCIATED WITH benign epilepsy with centrotemporal spikes (ortholog); Brugada syndrome (ortholog); Brugada syndrome 5 (ortholog); FOUND IN plasma membrane (ortholog); voltage-gated sodium channel complex (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: sodium channel beta-1 subunit; sodium channel subunit beta-1; sodium channel, voltage-gated, type I, beta subunit
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11117,504,428 - 117,510,666 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1117,503,828 - 117,511,727 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1116,904,982 - 116,912,817 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01118,101,274 - 118,110,870 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1118,101,277 - 118,109,849 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11117,664,454 - 117,672,298 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01117,289,863 - 117,297,724 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01118,346,453 - 118,354,295 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
alfentanil pharmacodynamics pathway  (ISO)
bupivacaine pharmacodynamics pathway  (ISO)
buprenorphine pharmacodynamics pathway  (ISO)
chloroprocaine pharmacodynamics pathway  (ISO)
citalopram pharmacodynamics pathway  (ISO)
cocaine pharmacodynamics pathway  (ISO)
codeine and morphine pharmacodynamics pathway  (ISO)
desipramine pharmacodynamics pathway  (ISO)
diphenoxylate pharmacodynamics pathway  (ISO)
escitalopram pharmacodynamics pathway  (ISO)
ethylmorphine pharmacodynamics pathway  (ISO)
fentanyl pharmacodynamics pathway  (ISO)
fluoxetine pharmacodynamics pathway  (ISO)
heroin pharmacodynamics pathway  (ISO)
hydrocodone pharmacodynamics pathway  (ISO)
hydromorphone pharmacodynamics pathway  (ISO)
imipramine pharmacodynamics pathway  (ISO)
levacetylmethadol pharmacodynamics pathway  (ISO)
levobupivacaine phgarmacodynamics pathway  (ISO)
levorphanol pharmacodynamics pathway  (ISO)
lidocaine pharmacodynamics pathway  (ISO)
lidocaine pharmacokinetics pathway  (ISO)
mepivacaine pharmacodynamics pathway  (ISO)
methadone pharmacodynamics pathway  (ISO)
nalbuphine pharmacodynamics pathway  (ISO)
naloxone pharmacodynamics pathway  (ISO)
naltrexone pharmacodynamics pathway  (ISO)
nicotine pharmacodynamics pathway  (ISO)
oxybuprocaine pharmacodynamics pathway  (ISO)
oxycodone pharmacodynamics pathway  (ISO)
oxymorphone pharmacodynamics pathway  (ISO)
pentazocine pharmacodynamics pathway  (ISO)
prilocaine pharmacodynamics pathway  (ISO)
procaine pharmacodynamics pathway  (ISO)
remifentanil pharmacodynamics pathway  (ISO)
ropivacaine pharmacodynamics pathway  (ISO)
tramadol pharmacodynamics pathway  (ISO)

References
Additional References at PubMed
PMID:21705762   PMID:30032202  


Genomics

Comparative Map Data
SCN1B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11117,504,428 - 117,510,666 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1117,503,828 - 117,511,727 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1116,904,982 - 116,912,817 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01118,101,274 - 118,110,870 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1118,101,277 - 118,109,849 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11117,664,454 - 117,672,298 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01117,289,863 - 117,297,724 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01118,346,453 - 118,354,295 (-)NCBIUU_Cfam_GSD_1.0
SCN1B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381935,030,470 - 35,040,449 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1935,030,470 - 35,040,449 (+)EnsemblGRCh38hg38GRCh38
GRCh371935,521,374 - 35,531,353 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361940,213,374 - 40,223,193 (+)NCBINCBI36Build 36hg18NCBI36
Build 341940,213,373 - 40,217,014NCBI
Celera1932,237,030 - 32,244,951 (+)NCBICelera
Cytogenetic Map19q13.11NCBI
HuRef1932,031,550 - 32,039,386 (+)NCBIHuRef
CHM1_11935,523,533 - 35,533,294 (+)NCBICHM1_1
T2T-CHM13v2.01937,575,088 - 37,585,067 (+)NCBIT2T-CHM13v2.0
Scn1b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39730,815,949 - 30,826,436 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl730,815,949 - 30,826,428 (-)EnsemblGRCm39 Ensembl
GRCm38731,116,524 - 31,127,023 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl731,116,524 - 31,127,003 (-)EnsemblGRCm38mm10GRCm38
MGSCv37731,901,543 - 31,911,964 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36730,825,284 - 30,835,705 (-)NCBIMGSCv36mm8
Celera725,685,753 - 25,696,176 (-)NCBICelera
Cytogenetic Map7B1NCBI
cM Map719.3NCBI
Scn1b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8195,481,298 - 95,491,211 (-)NCBIGRCr8
mRatBN7.2186,353,917 - 86,363,820 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl186,353,917 - 86,363,739 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx191,774,394 - 91,784,282 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01100,240,553 - 100,250,441 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0193,532,687 - 93,542,575 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0189,550,738 - 89,560,469 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl189,550,738 - 89,560,719 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0190,705,285 - 90,715,016 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4186,162,254 - 86,172,128 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1186,240,364 - 86,250,239 (-)NCBI
Celera180,722,797 - 80,732,619 (-)NCBICelera
Cytogenetic Map1q21NCBI
Scn1b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554684,375,157 - 4,383,502 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554684,375,517 - 4,383,383 (+)NCBIChiLan1.0ChiLan1.0
SCN1B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22041,041,639 - 41,051,647 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11943,024,053 - 43,034,048 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01931,974,499 - 31,984,488 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11940,714,949 - 40,724,052 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1940,711,281 - 40,724,052 (+)Ensemblpanpan1.1panPan2
Scn1b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934910,450,449 - 10,457,966 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365701,186,711 - 1,195,388 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365701,187,916 - 1,195,423 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SCN1B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl644,597,482 - 44,607,481 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1644,597,461 - 44,607,488 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2640,022,785 - 40,032,360 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SCN1B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1629,962,993 - 29,972,845 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl629,962,843 - 29,973,325 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660737,732,359 - 7,742,427 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Scn1b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247948,439,600 - 8,450,179 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247948,439,609 - 8,449,731 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SCN1B
125 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High 3
Medium 5 13 6 6 6 3 4 1
Low 5 9 6 6 6 8 6 5
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000011430   ⟹   ENSCAFP00000010590
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1117,504,328 - 117,511,727 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000068264   ⟹   ENSCAFP00000060302
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1117,504,328 - 117,511,727 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000082522   ⟹   ENSCAFP00000059779
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1117,503,828 - 117,510,664 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845006880   ⟹   ENSCAFP00845005479
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1118,101,277 - 118,109,849 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845006890   ⟹   ENSCAFP00845005487
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1118,101,277 - 118,108,951 (-)Ensembl
RefSeq Acc Id: NM_001025398   ⟹   NP_001020569
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11117,504,428 - 117,510,666 (-)NCBI
Dog10K_Boxer_Tasha1116,904,982 - 116,912,817 (-)NCBI
ROS_Cfam_1.01118,101,874 - 118,109,714 (-)NCBI
UMICH_Zoey_3.11117,664,454 - 117,672,298 (-)NCBI
UNSW_CanFamBas_1.01117,289,863 - 117,297,724 (-)NCBI
UU_Cfam_GSD_1.01118,346,453 - 118,354,295 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038653550   ⟹   XP_038509478
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01118,101,274 - 118,110,870 (-)NCBI
RefSeq Acc Id: XM_038653551   ⟹   XP_038509479
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01118,101,274 - 118,109,349 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001020569   ⟸   NM_001025398
- Peptide Label: precursor
- UniProtKB: Q4PPC4 (UniProtKB/Swiss-Prot),   A0A8C0R433 (UniProtKB/TrEMBL),   A0A8C0PZ57 (UniProtKB/TrEMBL),   A0A8I3MSQ3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000010590   ⟸   ENSCAFT00000011430
RefSeq Acc Id: ENSCAFP00000060302   ⟸   ENSCAFT00000068264
RefSeq Acc Id: ENSCAFP00000059779   ⟸   ENSCAFT00000082522
RefSeq Acc Id: XP_038509478   ⟸   XM_038653550
- Peptide Label: isoform X1
- UniProtKB: A0A8C0PZ57 (UniProtKB/TrEMBL),   A0A8I3MSQ3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038509479   ⟸   XM_038653551
- Peptide Label: isoform X2
- UniProtKB: A0A8C0PZ57 (UniProtKB/TrEMBL),   A0A8I3MSQ3 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845005479   ⟸   ENSCAFT00845006880
RefSeq Acc Id: ENSCAFP00845005487   ⟸   ENSCAFT00845006890
Protein Domains
Ig-like   Ig-like C2-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000007129 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSCAFG00030002018 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSCAFG00040002747 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSCAFG00805025798 UniProtKB/Swiss-Prot
  ENSCAFG00845003824 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000068264.2 UniProtKB/TrEMBL
  ENSCAFT00000082522.2 UniProtKB/Swiss-Prot
  ENSCAFT00030003695.1 UniProtKB/Swiss-Prot
  ENSCAFT00030003715.1 UniProtKB/TrEMBL
  ENSCAFT00040005233.1 UniProtKB/TrEMBL
  ENSCAFT00040005243.1 UniProtKB/Swiss-Prot
  ENSCAFT00805046757 UniProtKB/Swiss-Prot
  ENSCAFT00845006880 ENTREZGENE
  ENSCAFT00845006880.1 UniProtKB/Swiss-Prot
  ENSCAFT00845006890 ENTREZGENE
  ENSCAFT00845006890.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_channel_b1/b3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report cfa:484584 UniProtKB/Swiss-Prot
NCBI Gene SCN1B ENTREZGENE
PANTHER PTHR10546 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10546:SF2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8C0PZ57 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0R433 ENTREZGENE
  A0A8I3MSQ3 ENTREZGENE, UniProtKB/TrEMBL
  Q4PPC4 ENTREZGENE, UniProtKB/Swiss-Prot
VGNC ID VGNC:45916 ENTREZGENE