XLOC_009197 (scn3b)


Basic Information

Item Value
gene id XLOC_009197
gene name scn3b
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007126.7
NCBI id CM002899.2
chromosome length 48040578
location 22133839 ~ 22147860 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00018096
CTGAGATCATGATGTATGTGCTGCTGGTGTTCCTCACCTTCTGGCTGCTGGTGGAGATGGTCTACTGCTACAGGAAGATCTCCAAATCTGACGAGCAAGCACAGGACACTGCGACAGACTACTTAGCCATTCCctctgaaaataaagaaaacccgGGCCCTGCTGTAACGGAATAAAAGTCACTCACCATACGGTACTGACAACTTTTATTAACCGGTTTATAAAGAGCAGGCTCTTATCCTGCCCTCCAAAATCTCTCCAAGAGCTGCTCTGAGAAACCAGGAAACCTGCCAAATCAAATCCCTGTTGTCTTGATAATGTGACGTGTGGAAGAAACTCTGGACTGGTTCATTATCTTGCGCTGTCTCAGCGGAGGTTAATCTCAGACTGACTAGGATTTTTATGTGTCTGTCCTCAACT
>TCONS_00018097
ATGAGTAAGTGGCTACTTGGTAAGAAAACAAAGGCAAGCGTCTCTGTTCTCTCCAGCTGCTGAGGTTTGGCGATGGAGCAGCTGTACTATTTATGATGTGGATGCAGAAGAAAACCCTCCCTCCGTCACTGACATCTTGTGAAACAGCTCGTTTTGGATTCACCGGATTTCTATATTAAGCACGAATTTTCCACAGGAATCGTTAAGATCCACAGGTCTTTTGATTGTCGAGCGTCGCCATGGAGCAGCAGCGTCAGCTTTTAGTTTGACGCGCTCGCGGATGTTTGTATCTCGGAAGGCTGGAGTGAGTCTGAGACGCCGCCCTGTTGTTAGAACTCCCAGCATGGAAACTCACGGGAGGCTTGTATTGCATTTGCTATTGCTGTTCATATTCGCTGTGGTGGAGGTCAGGCTGGTGTGTGTGGATGTGCCATCAGACGGCGAGGCCATTGTAGGCAAAGTTAAGAAGTTAACCTGCATCTACTGCATGAAACGAGAGGAAATCCTGGCTACCACCAAAGTGGAGTGGTTTTACAAGGGCcaagataaaaacaaaactagAACACTTATCTATCTGTATGACGGCGAGCCGCAGGAGCCGAAGGATGTAGATGAGCAATGGAAAGGTCGGGTAACATGGACGGGCAGTAAGGACATGCAGGACGTCTCCATTAGCatcctaaatgtcactttaaacgaCACTGGCACATACGAATGTGAAGTAACTCGCTTCTTTGAGTTTGATTCATTCAAGCTTTCCGCCAACAAGAACATCAGAATCAATCTGAAGGTAAACATGCGAGCGAGTGCAGACATCACGGCGCTGTACTCTGAGATCATGATGTATGTGCTGCTGGTGTTCCTCACCTTCTGGCTGCTGGTGGAGATGGTCTACTGCTACAGGAAGATCTCCAAATCTGACGAGCAAGCACAGGACACTGCGACAGACTACTTAGCCATTCCctctgaaaataaagaaaacccgGGCCCTGCTGTAACGGAATAAAAGTCACTCACCATACGGTATTTTTGAATTTACCACATTAGAACCATCATCAACAGTTTCCCACTCATCCCGAGTAG

Function

symbol description
scn3b Predicted to enable sodium channel inhibitor activity and transmembrane transporter binding activity. Predicted to be involved in regulation of heart rate by cardiac conduction; regulation of sodium ion transmembrane transporter activity; and ventricular cardiac muscle cell action potential. Predicted to act upstream of or within regulation of ion transmembrane transport and sodium ion transport. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be part of voltage-gated sodium channel complex. Is expressed in atrium; brain; cardiac ventricle; and eye. Human ortholog(s) of this gene implicated in Brugada syndrome 7. Orthologous to human SCN3B (sodium voltage-gated channel beta subunit 3).

GO:

id name namespace
GO:0086091 regulation of heart rate by cardiac conduction biological_process
GO:0086002 cardiac muscle cell action potential involved in contraction biological_process
GO:0086005 ventricular cardiac muscle cell action potential biological_process
GO:0006811 ion transport biological_process
GO:0006814 sodium ion transport biological_process
GO:2000649 regulation of sodium ion transmembrane transporter activity biological_process
GO:0001518 voltage-gated sodium channel complex cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0017080 sodium channel regulator activity molecular_function
GO:0019871 sodium channel inhibitor activity molecular_function
GO:0044325 ion channel binding molecular_function

KEGG:

id description
ko04040 Ion channels

ZFIN:

id description
ZDB-GENE-070920-2 Predicted to enable sodium channel inhibitor activity and transmembrane transporter binding activity. Predicted to be involved in regulation of heart rate by cardiac conduction; regulation of sodium ion transmembrane transporter activity; and ventricular cardiac muscle cell action potential. Predicted to act upstream of or within regulation of ion transmembrane transport and sodium ion transport. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be part of voltage-gated sodium channel complex. Is expressed in atrium; brain; cardiac ventricle; and eye. Human ortholog(s) of this gene implicated in Brugada syndrome 7. Orthologous to human SCN3B (sodium voltage-gated channel beta subunit 3).

Ensembl:

ensembl_id ENSDARG00000062359

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00018096 False 420 mRNA 0.46 3 22133839 22139566
TCONS_00018097 True 1083 mRNA 0.47 6 22135987 22147860

Neighbor

gene id symbol gene type direction distance location
XLOC_009196 drd2a coding downstream 59524 22046557 ~ 22074315 (-)
XLOC_009195 NA coding downstream 229613 21900306 ~ 21904226 (-)
XLOC_009194 zgc:162608 coding downstream 255843 21875545 ~ 21877996 (-)
XLOC_009193 laynb coding downstream 280848 21842638 ~ 21852991 (-)
XLOC_009192 sik2b coding downstream 296324 21779681 ~ 21837515 (-)
XLOC_009198 NA coding upstream 13065 22160925 ~ 22161978 (-)
XLOC_009199 si:ch211-286b4.4 coding upstream 16689 22164549 ~ 22251089 (-)
XLOC_009200 CR936967.1 coding upstream 113021 22260881 ~ 22260997 (-)
XLOC_009201 zgc:194114 coding upstream 154864 22302724 ~ 22304193 (-)
XLOC_009202 NA coding upstream 440644 22588504 ~ 22594885 (-)
XLOC_009187 BX663519.1 non-coding downstream 593563 21521803 ~ 21540276 (-)
XLOC_009186 NA non-coding downstream 626303 21493852 ~ 21507536 (-)
XLOC_009185 NA non-coding downstream 764278 21355581 ~ 21369561 (-)
XLOC_009180 CR626907.2 non-coding downstream 1024231 21079826 ~ 21109608 (-)
XLOC_009203 CR388121.1 non-coding upstream 572905 22720765 ~ 22720881 (-)
XLOC_009204 BX572079.1 non-coding upstream 807157 22955017 ~ 22955132 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000072_04057264_04059507 NA coding CI01000072 null 4057264 ~ 4061351 (+)