Clcnkb (chloride voltage-gated channel Kb) - Rat Genome Database
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Gene: Clcnkb (chloride voltage-gated channel Kb) Rattus norvegicus
Analyze
Symbol: Clcnkb
Name: chloride voltage-gated channel Kb
RGD ID: 628639
Description: Exhibits chloride channel activity. Involved in chloride transport. Predicted to localize to integral component of plasma membrane. Human ortholog(s) of this gene implicated in Bartter disease type 3; Bartter disease type 4b; Gitelman syndrome; hypertension; and sensorineural hearing loss. Orthologous to several human genes including CLCNKB (chloride voltage-gated channel Kb); INTERACTS WITH (4-chloro-2-methylphenoxy)acetic acid; 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-diisothiocyano-trans-stilbene-2,2'-disulfonic acid.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: chloride channel K1-like; chloride channel K2; chloride channel Kb; chloride channel protein ClC-Kb; chloride channel, voltage-sensitive Kb; clC-K2; ClC-K2L; Clck2; Clcnk1l
Orthologs:
Homo sapiens (human) : CLCNKB (chloride voltage-gated channel Kb)  HGNC  Alliance
Mus musculus (house mouse) : Clcnkb (chloride channel, voltage-sensitive Kb)  MGI  Alliance
Pan paniscus (bonobo/pygmy chimpanzee) : CLCNKB (chloride voltage-gated channel Kb)
Canis lupus familiaris (dog) : CLCNKA (chloride voltage-gated channel Ka)
Chlorocebus sabaeus (African green monkey) : CLCNKB (chloride voltage-gated channel Kb)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.05159,950,384 - 159,973,576 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5159,950,392 - 159,962,676 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05163,670,926 - 163,694,123 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45160,294,294 - 160,305,991 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15160,304,482 - 160,316,179 (-)NCBI
Celera5152,071,911 - 152,083,591 (-)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:12111250   PMID:12477932   PMID:12761627   PMID:18480177   PMID:27748841  


Genomics

Comparative Map Data
Clcnkb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.05159,950,384 - 159,973,576 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5159,950,392 - 159,962,676 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05163,670,926 - 163,694,123 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45160,294,294 - 160,305,991 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15160,304,482 - 160,316,179 (-)NCBI
Celera5152,071,911 - 152,083,591 (-)NCBICelera
Cytogenetic Map5q36NCBI
CLCNKB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl116,043,736 - 16,057,308 (+)EnsemblGRCh38hg38GRCh38
GRCh38116,043,782 - 16,057,326 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37116,370,231 - 16,383,821 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36116,242,834 - 16,256,390 (+)NCBINCBI36hg18NCBI36
Build 34116,115,657 - 16,128,782NCBI
Celera114,850,148 - 14,863,702 (+)NCBI
Cytogenetic Map1p36.13NCBI
HuRef114,890,406 - 14,902,282 (+)NCBIHuRef
CHM1_1116,168,758 - 16,182,434 (+)NCBICHM1_1
Clcnkb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394141,131,668 - 141,143,440 (-)NCBI
GRCm384141,404,357 - 141,416,055 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4141,404,353 - 141,416,014 (-)EnsemblGRCm38mm10GRCm38
MGSCv374140,960,272 - 140,971,903 (-)NCBIGRCm37mm9NCBIm37
MGSCv364140,676,436 - 140,688,057 (-)NCBImm8
Celera4143,220,859 - 143,232,479 (-)NCBICelera
Cytogenetic Map4D3NCBI
CLCNKB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1116,174,570 - 16,188,166 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl116,174,570 - 16,188,166 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0115,180,858 - 15,194,757 (+)NCBIMhudiblu_PPA_v0panPan3
CLCNKA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1281,612,382 - 81,627,742 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CLCNKB
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl20116,241,569 - 116,254,280 (-)Ensembl
ChlSab1.120116,241,589 - 116,255,452 (-)NCBI

Position Markers
BI279792  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05159,950,525 - 159,950,855NCBIRnor6.0
Rnor_5.05163,671,067 - 163,671,397UniSTSRnor5.0
RGSC_v3.45160,294,428 - 160,294,758UniSTSRGSC3.4
Celera5152,072,045 - 152,072,375UniSTS
Cytogenetic Map5q36UniSTS
RH 3.4 Map51053.7UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)547745646167946134Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)561612600168109659Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)584963058173504662Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5116767924161767924Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5116767924161767924Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5116767924161767924Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5116767924161767924Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5128687766173687766Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5131077716173707219Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132551937173707219Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5133943857173707219Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5133943857173707219Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5134197905173707219Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5134712342173707219Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5134712342173707219Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5136354114173707219Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5136640731173707219Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5138154677172402610Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5142307322173707219Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5142309061173707219Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5149029982173687766Rat
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5149568588167739697Rat
631263Cm24Cardiac mass QTL 243.5heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)5149832180164807402Rat
1300119Bp180Blood pressure QTL 1803.82arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5150340838164298744Rat
2313096Bmd78Bone mineral density QTL 783.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)5150360936167946134Rat
1298090Bp155Blood pressure QTL 1553.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)5157212422167739539Rat
1354631Swd2Spike wave discharge measurement QTL 23.640.0002brain electrophysiology trait (VT:0010557)brain total spike-and-wave discharge duration (CMO:0001740)5157319671171194163Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5157319671173707219Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:172
Count of miRNA genes:98
Interacting mature miRNAs:106
Transcripts:ENSRNOT00000013550, ENSRNOT00000050729
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 renal system reproductive system respiratory system appendage
High
Medium 1 29 1
Low 2 43 19 3 18 3 2 2 16 6 27 11 2
Below cutoff 1 26 26 26 6 9 50 13 6

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_173103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006239320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764293 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764294 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764295 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764296 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764297 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593655 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593656 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAHX01040605 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01040606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB029158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC120594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC081698 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC100139 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC161834 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473968 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ437671 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ437672 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ437673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ437674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ437675 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ437676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Z30663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000013550   ⟹   ENSRNOP00000013550
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5159,950,392 - 159,962,676 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000050729   ⟹   ENSRNOP00000049598
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5159,950,392 - 159,962,218 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000080462   ⟹   ENSRNOP00000074402
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5159,960,720 - 159,961,560 (-)Ensembl
RefSeq Acc Id: NM_173103   ⟹   NP_775126
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05159,950,391 - 159,962,164 (-)NCBI
Rnor_5.05163,670,926 - 163,694,123 (-)NCBI
RGSC_v3.45160,294,294 - 160,305,991 (-)RGD
Celera5152,071,911 - 152,083,591 (-)RGD
Sequence:
RefSeq Acc Id: XM_006239320   ⟹   XP_006239382
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05159,950,384 - 159,973,576 (-)NCBI
Rnor_5.05163,670,926 - 163,694,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764293   ⟹   XP_008762515
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05159,950,384 - 159,973,576 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764294   ⟹   XP_008762516
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05159,950,384 - 159,963,109 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764295   ⟹   XP_008762517
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05159,950,384 - 159,963,109 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764296   ⟹   XP_008762518
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05159,950,384 - 159,963,109 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764297   ⟹   XP_008762519
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05159,950,384 - 159,963,109 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593655   ⟹   XP_017449144
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05159,950,384 - 159,963,108 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593656   ⟹   XP_017449145
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05159,950,384 - 159,973,575 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_775126   ⟸   NM_173103
- UniProtKB: P51802 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006239382   ⟸   XM_006239320
- Peptide Label: isoform X1
- UniProtKB: G3V7B3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008762515   ⟸   XM_008764293
- Peptide Label: isoform X1
- UniProtKB: G3V7B3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008762516   ⟸   XM_008764294
- Peptide Label: isoform X1
- UniProtKB: G3V7B3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008762519   ⟸   XM_008764297
- Peptide Label: isoform X3
- UniProtKB: E9PTA8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008762518   ⟸   XM_008764296
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008762517   ⟸   XM_008764295
- Peptide Label: isoform X1
- UniProtKB: G3V7B3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017449145   ⟸   XM_017593656
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017449144   ⟸   XM_017593655
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000074402   ⟸   ENSRNOT00000080462
RefSeq Acc Id: ENSRNOP00000013550   ⟸   ENSRNOT00000013550
RefSeq Acc Id: ENSRNOP00000049598   ⟸   ENSRNOT00000050729
Protein Domains
CBS

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13694229
Promoter ID:EPDNEW_R4749
Type:single initiation site
Name:Clcnkb_1
Description:chloride voltage-gated channel Kb
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05159,962,182 - 159,962,242EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:628639 AgrOrtholog
Ensembl Genes ENSRNOG00000009897 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013550 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000049598 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000074402 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013550 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000050729 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000080462 UniProtKB/TrEMBL
Gene3D-CATH 1.10.3080.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7109911 IMAGE-MGC_LOAD
InterPro CBS_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cl-channel_core UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cl-channel_volt-gated UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cl_channel-K UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:79430 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93079 IMAGE-MGC_LOAD
NCBI Gene 79430 ENTREZGENE
Pfam CBS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Voltage_CLC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Clcnkb PhenoGen
PRINTS CLCHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CLCHANNELKDY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CBS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CBS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF81340 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Rn.10339 ENTREZGENE
UniProt CLCKB_RAT UniProtKB/Swiss-Prot
  E9PTA8 ENTREZGENE, UniProtKB/TrEMBL
  G3V7B3 ENTREZGENE, UniProtKB/TrEMBL
  P51802 ENTREZGENE
  Q1W583_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Clcnkb  chloride voltage-gated channel Kb  Clcnkb  chloride channel, voltage-sensitive Kb  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-16 Clcnkb  chloride channel, voltage-sensitive Kb  Clcnkb  chloride channel Kb  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Clcnkb  chloride channel Kb  Clcnk1l  chloride channel K1-like  Symbol and Name updated 1299863 APPROVED
2003-02-27 Clcnk1l        Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression displays highest expression in the kidney 632474