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Gene: Clcn1 (chloride voltage-gated channel 1) Rattus norvegicus

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Symbol:

Clcn1

Name:

chloride voltage-gated channel 1

RGD ID:

2360

Description:

Enables voltage-gated chloride channel activity. Involved in chloride transport. Predicted to be located in sarcolemma. Predicted to be part of chloride channel complex. Predicted to be active in plasma membrane. Human ortholog(s) of this gene implicated in Becker disease; Thomsen disease; and myotonia congenita. Orthologous to human CLCN1 (chloride voltage-gated channel 1); INTERACTS WITH alpha-Zearalanol; ammonium chloride; atorvastatin calcium.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

chloride channel 1; chloride channel 1 (skeletal muscle); chloride channel 1, skeletal muscle; chloride channel protein 1; chloride channel protein, skeletal muscle; chloride channel, voltage-sensitive 1; clC-1; SMCC

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	CLCN1 (chloride voltage-gated channel 1)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther
Mus musculus (house mouse):	Clcn1 (chloride channel, voltage-sensitive 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Clcn1 (chloride voltage-gated channel 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CLCN1 (chloride voltage-gated channel 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CLCN1 (chloride voltage-gated channel 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Clcn1 (chloride voltage-gated channel 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CLCN1 (chloride voltage-gated channel 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CLCN1 (chloride voltage-gated channel 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Clcn1 (chloride voltage-gated channel 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Clcn1 (chloride voltage-gated channel 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	CLCN1 (chloride voltage-gated channel 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Clcn1 (chloride channel, voltage-sensitive 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	clcn1a (chloride channel, voltage-sensitive 1a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	clcn1b (chloride channel, voltage-sensitive 1b)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	ClC-a	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	ClC-a	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	clh-3	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	clh-1	Alliance	DIOPT (OMA\|OrthoFinder\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	clh-2	Alliance	DIOPT (OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	clh-4	Alliance	DIOPT (OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	clcn1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Is Marker For:

Strains: WF.BBDR-(Clcn1-D4Rat228)/Wor

Candidate Gene For:

Bp116

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	72,138,739 - 72,168,113 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	4	72,139,162 - 72,168,128 (+)	Ensembl				GRCr8
mRatBN7.2	4	71,171,949 - 71,201,483 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	71,172,547 - 71,199,984 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	4	76,092,286 - 76,119,750 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	72,005,543 - 72,033,007 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	70,425,008 - 70,452,467 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	71,674,218 - 71,704,318 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	71,675,383 - 71,702,819 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	4	136,479,719 - 136,509,472 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	4	70,052,319 - 70,081,449 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	4	66,103,038 - 66,130,477 (+)	NCBI		Celera
RGSC_v3.1	4	70,328,448 - 70,357,579 (+)	NCBI
RH 3.4 Map	4	433.61	RGD
Cytogenetic Map	4	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Becker disease (ISO)

cerebral palsy (ISO)

Charcot-Marie-Tooth disease intermediate type (ISO)

congenital myopathy (ISO)

genetic disease (ISO)

hyperkalemic periodic paralysis (ISO)

Hypokalemic Periodic Paralysis, Type 1 (ISO)

metachromatic leukodystrophy (ISO)

migraine (ISO)

myopathy (ISO)

Myotonia (ISO)

myotonia congenita (ISO,ISS)

RASopathy (ISO)

Smith-Lemli-Opitz syndrome (ISO)

Thomsen disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

3-isobutyl-1-methyl-7H-xanthine (ISO)

alpha-Zearalanol (EXP)

ammonium chloride (EXP)

aristolochic acid A (ISO)

atorvastatin calcium (EXP)

atrazine (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

calcitriol (ISO)

CGP 52608 (ISO)

clofibrate (ISO)

CPP (EXP,ISO)

dexamethasone (ISO)

disodium selenite (ISO)

doxorubicin (ISO)

fulvestrant (ISO)

genistein (EXP,ISO)

indometacin (ISO)

methoxychlor (EXP)

N-nitrosodiethylamine (EXP)

paracetamol (ISO)

perfluorooctanoic acid (EXP)

phenethyl caffeate (EXP)

silicon dioxide (ISO)

testosterone (ISO)

tetrachloromethane (EXP)

Theaflavin 3,3'-digallate (ISO)

trichloroethene (EXP)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chloride transmembrane transport (IEA,ISO)

chloride transport (IBA,IDA,IEA,ISO)

monoatomic ion transmembrane transport (IEA)

monoatomic ion transport (IEA)

muscle contraction (IEA,ISO,ISS)

neuronal action potential propagation (ISO)

transmembrane transport (IEA)

Cellular Component

chloride channel complex (IEA)

membrane (IEA)

monoatomic ion channel complex (IEA)

plasma membrane (IBA,IEA,ISO,ISS)

sarcolemma (IEA,ISO)

T-tubule (IEA)

Molecular Function

chloride channel activity (IEA)

chloride transmembrane transporter activity (IEA)

protein binding (ISO)

protein homodimerization activity (IEA,ISO,ISS)

voltage-gated chloride channel activity (IBA,IDA,IEA,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
3.	High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence.	Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
4.	Genomic organization of the human muscle chloride channel CIC-1 and analysis of novel mutations leading to Becker-type myotonia.	Lorenz C, etal., Hum Mol Genet 1994 Jun;3(6):941-6.
5.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
6.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
7.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
8.	GOA pipeline	RGD automated data pipeline
9.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
11.	Primary structure and functional expression of a developmentally regulated skeletal muscle chloride channel.	Steinmeyer K, etal., Nature 1991 Nov 28;354(6351):301-4.

Additional References at PubMed

PMID:2453798	PMID:7721815	PMID:15139012	PMID:19220292	PMID:19786584	PMID:22521272	PMID:26007199	PMID:26021757	PMID:26502825

Genomics

Comparative Map Data

Clcn1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	72,138,739 - 72,168,113 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	4	72,139,162 - 72,168,128 (+)	Ensembl				GRCr8
mRatBN7.2	4	71,171,949 - 71,201,483 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	71,172,547 - 71,199,984 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	4	76,092,286 - 76,119,750 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	72,005,543 - 72,033,007 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	70,425,008 - 70,452,467 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	71,674,218 - 71,704,318 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	71,675,383 - 71,702,819 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	4	136,479,719 - 136,509,472 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	4	70,052,319 - 70,081,449 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	4	66,103,038 - 66,130,477 (+)	NCBI		Celera
RGSC_v3.1	4	70,328,448 - 70,357,579 (+)	NCBI
RH 3.4 Map	4	433.61	RGD
Cytogenetic Map	4	q24	NCBI

CLCN1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	143,316,111 - 143,352,083 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	143,316,111 - 143,352,083 (+)	Ensembl			hg38	GRCh38
GRCh37	7	143,013,204 - 143,049,176 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	142,723,341 - 142,759,219 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	7	142,530,055 - 142,565,934	NCBI
Celera	7	137,850,084 - 137,885,958 (+)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI
HuRef	7	137,350,584 - 137,386,478 (+)	NCBI		HuRef
CHM1_1	7	142,950,106 - 142,986,018 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	7	144,671,527 - 144,707,513 (+)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	142,415,337 - 142,451,223 (+)	NCBI

Clcn1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	42,263,552 - 42,292,693 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	42,263,619 - 42,292,690 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	6	42,284,851 - 42,315,764 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	42,286,685 - 42,315,756 (+)	Ensembl			mm10	GRCm38
MGSCv37	6	42,236,684 - 42,264,655 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	6	42,216,292 - 42,244,263 (+)	NCBI		MGSCv36	mm8
Celera	6	42,231,004 - 42,259,063 (+)	NCBI		Celera
Cytogenetic Map	6	B2.1	NCBI
cM Map	6	20.57	NCBI

Clcn1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955494	319,738 - 348,511 (-)	Ensembl
ChiLan1.0	NW_004955494	318,137 - 349,568 (-)	NCBI	ChiLan1.0	ChiLan1.0

CLCN1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	6	180,166,368 - 180,207,234 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	7	32,176,625 - 32,217,491 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	7	135,308,966 - 135,346,734 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	7	147,801,440 - 147,837,654 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	147,801,440 - 147,836,701 (+)	Ensembl			panPan2	panpan1.1

CLCN1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	16	6,342,772 - 6,373,580 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	16	6,342,772 - 6,373,580 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	16	7,331,919 - 7,362,475 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	16	6,196,701 - 6,227,304 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	16	6,196,701 - 6,227,304 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	16	6,144,363 - 6,174,910 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	16	5,996,056 - 6,026,611 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	16	6,071,349 - 6,101,933 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Clcn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405118	12,112,783 - 12,144,385 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936527	759,047 - 790,670 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936527	759,012 - 791,302 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CLCN1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	18	6,902,542 - 6,940,449 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	18	6,902,540 - 6,941,530 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	18	7,143,450 - 7,181,431 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CLCN1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	21	112,196,136 - 112,237,836 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	21	112,197,518 - 112,236,115 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666072	8,923,045 - 8,982,440 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Clcn1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624800	11,418,225 - 11,446,666 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624800	11,417,040 - 11,446,732 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Clcn1
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	6	97,903,383 - 97,932,823 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Clcn1
250 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	55
Count of miRNA genes:	49
Interacting mature miRNAs:	54
Transcripts:	ENSRNOT00000051265
Prediction methods:	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.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1358352	Srcrt3	Stress Responsive Cort QTL 3	2.29		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	39431983	123203361	Rat
1549843	Bw53	Body weight QTL 53		0.0001	body mass (VT:0001259)	body weight gain (CMO:0000420)	4	59753119	104753119	Rat
61445	Strs3	Sensitivity to stroke QTL 3	3		cerebrum integrity trait (VT:0010549)	post-insult time to onset of cerebrovascular lesion (CMO:0002343)	4	41400577	86400577	Rat
6893678	Bw108	Body weight QTL 108	2.6	0.006	body mass (VT:0001259)	body weight (CMO:0000012)	4	44425024	89425024	Rat
10755501	Bp390	Blood pressure QTL 390	2.5		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	4	27730518	170099664	Rat
1358363	Sradr3	Stress Responsive Adrenal Weight QTL 3	6.19		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	4	58817672	103817672	Rat
61330	Eau1	Experimental allergic uveoretinitis QTL 1		0.0003	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	4	26234499	134199155	Rat
61336	Bp21	Blood pressure QTL 21	4.6		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	58080146	80212111	Rat
1549839	Bw52	Body weight QTL 52		0.0001	body mass (VT:0001259)	body weight gain (CMO:0000420)	4	71647492	116647492	Rat
6909128	Pancm4	Pancreatic morphology QTL 4	11.35		pancreas mass (VT:0010144)	pancreas wet weight (CMO:0000626)	4	27862204	126119996	Rat
61475	Aia2	Adjuvant induced arthritis QTL 2	5.8		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	40471453	75939996	Rat
8694439	Bw168	Body weight QTL 168	9.57	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	4	41400603	86400603	Rat
8655906	Rf60	Renal function QTL 60	3.8		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	4	30448961	82336920	Rat
1641919	Alc22	Alcohol consumption QTL 22		0.0005	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	65060960	127749483	Rat
2317577	Eae24	Experimental allergic encephalomyelitis QTL 24			nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	4	67960112	73752811	Rat
1354660	Salc1	Saline consumption QTL 1	11.26		drinking behavior trait (VT:0001422)	saline drink intake rate (CMO:0001627)	4	45429897	149763204	Rat
1298082	Stresp4	Stress response QTL 4			blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	51085655	113588029	Rat
2317588	Eae27	Experimental allergic encephalomyelitis QTL 27			nervous system integrity trait (VT:0010566)	percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)	4	69036742	114036742	Rat
1300139	Hrtrt6	Heart rate QTL 6	2.85		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	40490442	117737312	Rat
70200	Alc18	Alcohol consumption QTL 18	9.2		drinking behavior trait (VT:0001422)	ethanol intake volume to total fluid intake volume ratio (CMO:0001591)	4	57613339	151163960	Rat
4889969	Bss96	Bone structure and strength QTL 96	4.9		tibia size trait (VT:0100001)	tibia cortical bone volume (CMO:0001725)	4	57613242	102613242	Rat
2316958	Gluco58	Glucose level QTL 58	10		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	12212457	182430611	Rat
4889972	Bss97	Bone structure and strength QTL 97	5.6		tibia size trait (VT:0100001)	tibia total bone volume (CMO:0001724)	4	57613242	102613242	Rat
6478684	Anxrr30	Anxiety related response QTL 30		0.00087	defecation behavior trait (VT:0010462)	defecation rate (CMO:0000998)	4	64084079	109084079	Rat
5685012	Bmd87	Bone mineral density QTL 87	5.1		tibia mineral mass (VT:1000283)	bone mineral content (CMO:0001554)	4	35113290	80113290	Rat
5685009	Bmd86	Bone mineral density QTL 86	3.7		tibia mineral mass (VT:1000283)	bone mineral density (CMO:0001226)	4	57613242	102613242	Rat
1331807	Rf31	Renal function QTL 31	2.988		urine potassium amount (VT:0010539)	urine potassium level (CMO:0000128)	4	40490442	75726188	Rat
634311	Sach7	Saccharin preference QTL 7			taste sensitivity trait (VT:0001986)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	4	58079875	82597589	Rat
2306547	Iddm38	Insulin dependent diabetes mellitus QTL 38			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	68353567	113353567	Rat
738009	Sach4	Saccharine consumption QTL 4	4.9	0.000016	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	4	60916264	184426481	Rat
631261	Tcas3	Tongue tumor susceptibility QTL 3	6.88		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	4	11706604	92690519	Rat
6478772	Anxrr49	Anxiety related response QTL 49		0.15488	defecation behavior trait (VT:0010462)	defecation rate (CMO:0000998)	4	64084079	109084079	Rat
2312569	Pur19	Proteinuria QTL 19	3.4	0.001	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	4	59836842	104836842	Rat
8655961	Kidm43	Kidney mass QTL 43	18		kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	4	37269577	82269577	Rat
1354612	Foco1	Food consumption QTL 1	8.87		eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	4	45429897	149763204	Rat
634344	Hcar7	Hepatocarcinoma resistance QTL 7	7.8		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	4	61041057	94638356	Rat
2303168	Bp330	Blood pressure QTL 330	4.25	0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	5889999	148002343	Rat
738031	Alc14	Alcohol consumption QTL 14	7.6	0.00003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	60916264	174095838	Rat
1576305	Emca6	Estrogen-induced mammary cancer QTL 6	5.8		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	4	45429709	157555683	Rat
61418	Pia5	Pristane induced arthritis QTL 5	4.5		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	63245026	129846354	Rat
631651	Bp124	Blood pressure QTL 124	3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	64209744	109209744	Rat
738016	Alc16	Alcohol consumption QTL 16	3.6	0.00015	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	60916264	184426481	Rat
1558651	Swd3	Spike wave discharge measurement QTL 3	4.62	0.000024	brain electrophysiology trait (VT:0010557)	brain spike-and-wave discharge frequency (CMO:0001742)	4	41400577	86400577	Rat
1641833	Alc21	Alcohol consumption QTL 21	8.6	0.0001	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	57664252	127749483	Rat
631546	Bp86	Blood pressure QTL 86	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	58079875	92690793	Rat
631674	Iddm14	Insulin dependent diabetes mellitus QTL 14			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	4	65495851	159259805	Rat
6478743	Anxrr40	Anxiety related response QTL 40		0.83076	defecation behavior trait (VT:0010462)	defecation rate (CMO:0000998)	4	64084079	109084079	Rat
61434	Cia3	Collagen induced arthritis QTL 3	4.8		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	63224393	108224393	Rat
7394826	Bw126	Body weight QTL 126		0.002	body mass (VT:0001259)	body weight gain (CMO:0000420)	4	63900458	88813920	Rat
12798520	Anxrr55	Anxiety related response QTL 55	4.45	0.01	locomotor behavior trait (VT:0001392)	number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)	4	33538597	116185060	Rat
631671	Iddm11	Insulin dependent diabetes mellitus QTL 11	3.6	0.0012	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	4	59603319	80216952	Rat

Markers in Region

RH94644

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	4	71,199,855 - 71,199,964 (+)	MAPPER	mRatBN7.2
Rnor_6.0	4	71,702,691 - 71,702,799	NCBI	Rnor6.0
Rnor_5.0	4	136,507,088 - 136,507,196	UniSTS	Rnor5.0
RGSC_v3.4	4	70,081,321 - 70,081,429	UniSTS	RGSC3.4
Celera	4	66,130,349 - 66,130,457	UniSTS
RH 3.4 Map	4	433.61	UniSTS
Cytogenetic Map	4	q23	UniSTS

Related Rat Strains

The following Strains have been annotated to Clcn1

WF.BBDR-(Clcn1-D4Rat228)/Wor

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	11	63	153	71	70	39	79	39	6	299	174	9	131	62	92	31	11	11

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_013147	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008762873	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039107135	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC121165	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY112736	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY112737	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY112738	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY112739	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY112740	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473959	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000004	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	X62894	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000051265 ⟹ ENSRNOP00000043372

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	4	72,139,200 - 72,168,105 (+)	Ensembl
mRatBN7.2 Ensembl	4	71,172,547 - 71,199,984 (+)	Ensembl
Rnor_6.0 Ensembl	4	71,675,383 - 71,702,819 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000104906 ⟹ ENSRNOP00000087495

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	4	72,139,200 - 72,168,105 (+)	Ensembl
mRatBN7.2 Ensembl	4	71,172,547 - 71,199,984 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000144769 ⟹ ENSRNOP00000103689

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	4	72,139,162 - 72,168,128 (+)	Ensembl

RefSeq Acc Id:

NM_013147 ⟹ NP_037279

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	72,139,178 - 72,166,614 (+)	NCBI
mRatBN7.2	4	71,172,547 - 71,199,984 (+)	NCBI
Rnor_6.0	4	71,675,383 - 71,702,819 (+)	NCBI
Rnor_5.0	4	136,479,719 - 136,509,472 (+)	NCBI
RGSC_v3.4	4	70,052,319 - 70,081,449 (+)	RGD
Celera	4	66,103,038 - 66,130,477 (+)	RGD

Sequence:

show sequence

CAAAAGCAGAGGCTTAAGGAGGTACTAGGGGGAGACTAGGAGCAAGCAGGCCAAGGCCTGGCTG
GGGCTTGGGGGGAGGACACATGGAGCGGTCCCAGTCCCAGCAACATGGAGGTGAACAAAGCTGG
TGGGGCACTGCCCCCCAGTACCAGTACATGCCCTTCGAACATTGTACCAGCTATGGACTGCCCT
CAGAGAATGGGGGCCTTCAGCACCGGCCCCGAAAGGACCTGGGTCCCAGGCACAATGCCCACCC
AACACAGATATATGGCCATCACAAAGAACAATATTCATATCAGGCACAGGACAGGGGAATACCC
AAGAAGACGGACTCCAGTTCTACTGTGGACAGCTTGGATGAGGACCACTATTCTAAATGTCAAG
ACTGTGTCCATCGCCTGGGACGTGTGCTGAGAAGGAAGCTGGGGGAAGACTGGATCTTTCTTGT
GCTCCTGGGCCTACTGATGGCTCTTGTCAGCTGGTGCATGGACTATGTTAGCGCCAAGAGCCTT
CAGGCCTACAAGTGGACCTATGCCCAGATGCAGCCCAGCCTTCCTCTACAGTACTTGGCCTGGG
TCACCTTCCCACTTATCCTCATCCTCTTCAGTGCCCTCTTTTGCCAACTCATCTCTCCCCAGGC
TGTGGGCTCTGGAATCCCTGAGATGAAGACAATTCTTCGTGGTGTTGTCTTGAAGGAATACCTC
ACACTCAAGGCCTTTGTAGCCAAGGTGGTGGCCTTGACAGCCGGTCTGGGCAGTGGTATCCCTG
TGGGGAAAGAGGGTCCCTTTGTTCACATTGCCAGCATCTGTGCTGCTGTCCTCAGCAAATTCAT
GTCCATGTTCTCTGGTGTCTATGAGCAGCCATACTATTACACTGACATCCTGACAGTGGGCTGT
GCCGTGGGGGTCGGTTGCTGTTTTGGAACACCACTTGGAGGAGTGCTGTTCAGCATCGAGGTCA
CCTCTACCTACTTTGCCGTTCGGAATTACTGGCGAGGATTCTTTGCAGCCACCTTCAGTGCCTT
TGTGTTCCGCGTCCTGGCAGTGTGGAACAAGGATGCTGTCACTATTACTGCTCTGTTCAGAACT
AATTTCCGGATGGATTTCCCCTTTGACCTGAAGGAACTCCCAGCTTTTGCTGTCATTGGGATTT
GCTGCGGGTTCTTGGGAGCTGTTTTTGTTTATCTGCATCGCCAAGTCATGCTCGGTGTCCGAAA
GCACAAGGCTCTCAGCCAGTTTCTTGCTAAGCACCGCCTGCTCTATCCTGGAATCGTTACTTTT
GTCATCGCCTCACTCACCTTTCCACCAGGAATGGGTCAATTCATGGCTGGAGAGCTGATGCCCC
GTGAAGCTATCAGCACCCTCTTTGACAACAACACATGGGTAAAGCACATAGGTGATCCCAAAAG
CTTGGGCCAGTCAGCTGTGTGGATTCACCCCCAGGTCAACGTGGTCATCATCATCCTTCTCTTC
TTCGTCATGAAGTTTTGGATGTCCATTGTGGCCACGACTATGCCCATACCCTGTGGAGGCTTCA
TGCCTGTTTTTGTGCTAGGAGCTGCCTTTGGAAGGCTGGTAGGAGAGATCATGGCCATGCTGTT
CCCTGAGGGTATCTTATTTGATGATATCATCTATAAGATCTTACCAGGGGGCTATGCAGTGATT
GGAGCAGCAGCTTTGACAGGGGCTGTCTCTCACACAGTCTCCACAGCTGTGATTTGCTTCGAAT
TAACTGGTCAGATTGCTCACATCCTGCCCATGATGGTGGCTGTTATCTTGGCCAACATGGTGGC
CCAAAGTCTGCAGCCCTCCCTCTATGACAGCATCATCCAGGTCAAGAAGCTTCCCTATTTGCCA
GACCTTGGTTGGAACCAGCTCAGCAAATTTACAATTTTTGTTGAGGACATCATGGTACGTGACG
TGAAGTTTGTTTCAGCTTCTTGTACATACGGGGAACTAAGAAACCTACTCCAGACCACCACAGT
CAAGACTTTACCATTGGTTGACTCCAAAGATTCAATGATCCTGCTAGGCTCTGTGGAACGCTCA
GAACTGCAGTCCCTCCTGCAGCGCCACCTGTGTGCAGAGCGAAGGTTGAAGGCTGCCCAGGACA
TGGCTCGAAAGTTATCAGAGCTGCCCTATAATGGCCAGGCTCAGCTGGCTGGGGAGTGGCATCC
TGGTGGTCGACCTGAGTCCTTTGCCTTCGTAGATGAAGATGAAGATGAGGACGTCTCCCGGAAG
ACAGAGCTTCCACAGACTCCAACTCCTCCTCCTCCTCCCCCTCCTCCTCTGCCTCCCCAGTTTC
CTATTGCTCCATCATACCCTGAAGAGCCTAACGGGCCACTGCCCAGCCACAAACAGCCCCCTGA
AGCTTCAGACTCTGCAGATCAAAGGTCCTCCATCTTCCAGCGCCTGCTGCACTGCTTACTGGGC
AAAGCTCACTCCACAAAGAAGAAAATAACCCAGGATTCAACAGATTTAGTGGATAACATGTCAC
CTGAAGAGATTGAGGCCTGGGAGCGGGAGCAGCTGAGCCAGCCTGTGTGTTTTGATTTCTGCTG
CATTGACCAGTCTCCCTTCCAGCTGGTGGAGCAGACAACTCTGCACAAGACTCATACACTCTTC
TCACTTCTTGGCCTCCATCTTGCCTATGTGACCAGCATGGGGAAGCTCAGAGGTGTCTTGGCAC
TAGAAGAGCTACAGAAAGCTATCAAGGGCCACACCAAATCTGGAGTGCAGCTTCGCCCTCCACT
TGCCAGCTTCCGGAATACAACTTCAATTCGGAAGACCCCTGGGGGGCCACCCCCTCCTGCAGAG
AGCTGGAATGTGCCTGAGGGTGAAGATGGAGCTCCTGAAAGAGAAGTCATGGTTCCTACCATGC
CAGAGACTCCTGTCCCACCACCATCTCCAGAGGTCCCTTCCTGCCTGGCCCCAGCCAGAGTGGA
GGGTGAGCTGGAGGAACTGGAGATGGTGGGGAACCTAGGGCCTGAGGAGGACCTGGCTGACATC
TTGCATGGCCCCAGTCTGCGGTCCACTGATGAGGAAGATGAGGACGAGCTGATCCTGTGAACAA
CACCCTCCAAGCTTTCTTCATAAAAACCACAGGGCCCATGTCAGAGAGTGGGCTTGTATATGAA
ATGGGTGCCCTGAAGTTGGGGAGACCTCCATTTCATCGTTGTTCCTACCCCACTATGAAAG

hide sequence

RefSeq Acc Id:

XM_008762873 ⟹ XP_008761095

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	72,138,739 - 72,168,113 (+)	NCBI
mRatBN7.2	4	71,171,972 - 71,201,483 (+)	NCBI
Rnor_6.0	4	71,674,218 - 71,704,318 (+)	NCBI

Sequence:

show sequence

TGTTTGCTTTGTTTTTCATTTTAAAGGGGCCAGAAAAATGGCTTGATGGTTAGAAAAAACTTAC
TGCTTTGTTTAGGACCCCCAGCACCCATGTCAGGCCATACACAATTGTTAAAACTAGCTGCAGG
GCATCTTGACACCCTCCTCTGGACTCCATGGGCACCCGTACTCATGTGTACTGCACCACACGTA
AAGGCAGGTAACTAAAAATAATGACAATAAAAATTAAATTCCTTTTTGTAATTTTTTTTAATCT
TTAAAAGAAAAGGTACTTTTAATGGCGTCTTACCTTCCCACTTGGAACAATCCCATTTAACATA
GGTCAGAATCATTGCAGACCAGATATTTGGTGTGCATACCTTTCAGTCCTTGAGATGGTTACTT
GTCCATCTTCTCCTGTTTCTTGGGTTCCTACTATCACCTGCCCTGTGACTAGCTAACCTACCCT
GGTAGAACTGTCATTGGCACCACAGTCCAGTTGAGAGCTCAGTCCCTCCCTACTGATCTGAGCT
GCTGCTGGGGCTCTCACATATGTCTAGGAAATGAGAGACAATCCACACCCAGTGGTGATATGGG
TGGGGTCGAGGGGAAGGCCCCAGCGTGTTTTTAGCTGCTCTTGGCAGACTCAAGGGCCGAGAGC
TGGAGGAGAAAGCTGGGAATCTGATGCATGTGGAGAGCTGGCTGCAGAAAAGTCCAGATGAAGC
CTTAAGAGATACTGAGCTGAAACCAGCCCAACCAACAAGGAGAGATAGCAGAGAGGCGTCAGCT
GCTCTCCCAGGTGAGTTGCCTGTCTAATGTTACCAAAACACTGAGTGGCTTCGTTCAACATTCT
CTCTCCCCTCACTTACCACGAGGTCTGCGGGGACGCTCAGCTATACACACAGCCTAGAAATTTC
AGTAGGAACTTTTTCACTCTGGTCCTGCTGATACTTAGAAAGGAACTAGTGAGCCTTGTAGGAA
AGGAACAACGCTGCCGGCTGGCAGAGGGAATTCCCTGTTGGACTGTCCCATAGGTTCTCCTACC
CCCACCCCCACACTCCACTCACACCTGCTTCGACCCCAGAAGGATCAGATGTGGCAGTGGGGGG
GGGATGGGTCATGTGATGGAGAGACAGCTATAAATAGCTAGAGGTGGGCATGTTGCCCCAGACG
CCTTGGGGACAGTCAAAAGCAGAGGCTTAAGGAGGTACTAGGGGGAGACTAGGAGCAAGCAGGC
CAAGGCCTGGCTGGGGCTTGGGGGGAGGACACATGGAGCGGTCCCAGTCCCAGCAACATGGAGG
TGAACAAAGCTGGTGGGGCACTGCCCCCCAGTACCAGTACATGCCCTTCGAACATTGTACCAGC
TATGGACTGCCCTCAGAGAATGGGAGCCTTCAGCACCGGCCCCGAAAGGACCTGGGTCCCAGGC
ACAATGCCCACCCAACACAGATATATGGCCATCACAAAGAACAATATTCATATCAGGCACAGGA
CAGGGGAATACCCAAGAAGACGGACTCCAGTTCTACTGTGGACAGCTTGGATGAGGACCACTAT
TCTAAATGTCAAGACTGTGTCCATCGCCTGGGACGTGTGCTGAGAAGGAAGCTGGGGGAAGACT
GGATCTTTCTTGTGCTCCTGGGCCTACTGATGGCTCTTGTCAGCTGGTGCATGGACTATGTTAG
CGCCAAGAGCCTTCAGGCCTACAAGTGGACCTATGCCCAGATGCAGCCCAGCCTTCCTCTACAG
TACTTGGCCTGGGTCACCTTCCCACTTATCCTCATCCTCTTCAGTGCCCTCTTTTGCCAACTCA
TCTCTCCCCAGGCTGTGGGCTCTGGAATCCCTGAGATGAAGACAATTCTTCGTGGTGTTGTCTT
GAAGGAATACCTCACACTCAAGGCCTTTGTAGCCAAGGTGGTGGCCTTGACAGCCGGTCTGGGC
AGTGGTATCCCTGTGGGGAAAGAGGGTCCCTTTGTTCACATTGCCAGCATCTGTGCTGCTGTCC
TCAGCAAATTCATGTCCATGTTCTCTGGTGTCTATGAGCAGCCATACTATTACACTGACATCCT
GACAGTGGGCTGTGCCGTGGGGGTCGGTTGCTGTTTTGGAACACCACTTGGAGGAGTGCTGTTC
AGCATCGAGGTCACCTCTACCTACTTTGCCGTTCGGAATTACTGGCGAGGATTCTTTGCAGCCA
CCTTCAGTGCCTTTGTGTTCCGCGTCCTGGCAGTGTGGAACAAGGATGCTGTCACTATTACTGC
TCTGTTCAGAACTAATTTCCGGATGGATTTCCCCTTTGACCTGAAGGAACTCCCAGCTTTTGCT
GTCATTGGCCGCCTGCTCTATCCTGGAATCGTTACTTTTGTCATCGCCTCACTCACCTTTCCAC
CAGGAATGGGTCAATTCATGGCTGGAGAGCTGATGCCCCGTGAAGCTATCAGCACCCTCTTTGA
CAACAACACATGGGTAAAGCACATAGGTGATCCCAAAAGCTTGGGCCAGTCAGCTGTGTGGATT
CACCCCCAGGTCAACGTGGTCATCATCATCCTTCTCTTCTTCGTCATGAAGTTTTGGATGTCCA
TTGTGGCCACGACTATGCCCATACCCTGTGGAGGCTTCATGCCTGTTTTTGTGCTAGGAGCTGC
CTTTGGAAGGCTGGTAGGAGAGATCATGGCCATGCTGTTCCCTGAGGGTATCTTATTTGATGAT
ATCATCTATAAGATCTTACCAGGGGGCTATGCAGTGATTGGAGCAGCAGCTTTGACAGGGGCTG
TCTCTCACACAGTCTCCACAGCTGTGATTTGCTTCGAATTAACCGGTCAGATTGCTCACATCCT
GCCCATGATGGTGGCTGTTATCTTGGCCAACATGGTGGCCCAAAGTCTGCAGCCCTCCCTCTAT
GACAGCATCATCCAGGTCAAGAAGCTTCCCTATTTGCCAGACCTTGGTTGGAACCAGCTCAGCA
AATTTACAATTTTTGTTGAGGACATCATGGTACGTGACGTGAAGTTTGTTTCAGCTTCTTGTAC
ATACGGGGAACTAAGAAACCTACTCCAGACCACCACAGTCAAGACTTTACCATTGGTTGACTCC
AAAGATTCAATGATCCTGCTAGGCTCTGTGGAACGCTCAGAACTGCAGTCCCTCCTGCAGCGCC
ACCTGTGTGCAGAGCGAAGGTTGAAGGCTGCCCAGGACATGGCTCGAAAGTTATCAGAGCTGCC
CTATAATGGCCAGGCTCAGCTAGCTGGGGAGTGGCATCCTGGTGGTCGACCTGAGTCCTTTGCC
TTCGTAGATGAAGATGAAGATGAGGACGTCTCCCGGAAGACAGAGCTTCCACAGACTCCAACTC
CTCCTCCTCCTCCCCCTCCTCCTCTGCCTCCCCAGTTTCCTATTGCTCCATCATACCCTGAAGA
GCCTAACGGGCCACTGCCCAGCCACAAACAGCCCCCTGAAGCTTCAGACTCTGCAGATCAAAGG
TCCTCCATCTTCCAGCGCCTGCTGCACTGCTTACTGGGCAAAGCTCACTCCACAAAGAAGAAAA
TAACCCAGGATTCAACAGATTTAGTGGATAACATGTCACCTGAAGAGATTGAGGCCTGGGAGCA
GGAGCAGCTGAGCCAGCCTGTGTGTTTTGATTTCTGCTGCATTGACCAGTCTCCCTTCCAGCTG
GTGGAGCAGACAACTCTGCACAAGACTCATACACTCTTCTCACTTCTTGGCCTCCATCTTGCCT
ATGTGACCAGCATGGGGAAGCTCAGAGGTGTCTTGGCACTAGAAGAGCTACAGAAAGCTATCAA
GGGCCACACCAAATCTGGAGTGCAGCTTCGCCCTCCACTTGCCAGCTTCCGGAATACAACTTCA
ATTCGGAAGACCCCTGGGGGGCCACCCCCTCCTGCAGAGAGCTGGAATGTGCCTGAGGGTGAAG
ATGGAGCTCCTGAAAGAGAAGTCATGGTTCCTACCATGCCAGAGACTCCTGTCCCACCACCATC
TCCAGAGGTCCCTTCCTGCCTGGCCCCAGCCAGAGTGGAGGGTGAGCTGGAGGAACTGGAGATG
GTGGGGAACCTAGGGCCTGAGGAGGACCTGGCTGACATCTTGCATGGCCCCAGTCTGCGGTCCA
CTGATGAGGAAGATGAGGACGAGCTGATCCTGTGAACAACACCCTCCAAGCTTTCTTCATAAAA
ACCACAGGGCCCATGTCAGAGAGTGGGCTTGTATATGAAATGGGTGCCCTGAAGTTGGGGAGAC
CTCCATTTCATCATTGTTCCTACCCCACTATGAAAGGTGATGGTGATGATCTTAAGGAGAACTT
GATCTTGGGCAGGGAAGAATTTGGGTCCATCAGACCCCCCTCCCCATTTCCAGGGAGGGTTCAA
GGCCCCATGCTCAAAGGACTTCTGTGTTCCTGCTGTGCAGGTTCAGTCCCTGTCACTCTAATGC
CCCACAATTCCCAGTGTCGTTCTGTCACCATCCTGGCCCGGCATGCCTGTCTATATTTCAGTTT
CCATATGGAGTAGGTGAGTGGAGGCCCAGATTGAAAGAATCCGCAAGTGTCACATTGGAAGGGA
ATGTGGGACCACAATATTGCCATGTGGATTGACTACCCTAAAATGTGCCCCCAAGCCTGCCAGC
TGTACTTTCTACCTGTGTGCTCCCCCAAATTTGTCCTAGACCCCATCATTGCTGCCACTGTTTC
TAGGCCAAGCCCTTTATCAGGGCTGAAAAAGCCAACCTTTGTTTCCACAGAACCATGTGCAGTT
CCCTGGAAAGGAGGTTGATGATGTGTGTAGAGACAGGCGTCATGGCTCAGTACAGGTGTCAGAC
CCCTACAGCCGAGAGCTCTGTTTCTTGTCCCAGCCTCTTTGCCTAGCTCCTTGTTACACTTAAC
TAACTTAGCCCGCCAGGAGTCAGCTCTGCCTTGGGGCCACTCTTACTAGAGCTCCTCCCAAAAC
AGACAAGGCTCTGTCTCGTGCAGCTTTGGGGAATGCAGACTCCAGCCCTTTATAAACTCTGTGG
GATCCTCTGGCATAAACTGGGGCACCCTGAGCGTGGCAAGCTTTAGTTTACTCATCCTTAGAGG
GCCCCCATCTTTTTCCTTTCAAACCAGCAAGGAGCTTGATAGTCGTGCTGTACAGCATTGGCCT
GCTTAGCCTAGAAATATATGCCGGGTGTTGTAACATTCAGACACCTTGGCTCATTCATGGGTTC
TTTCTGTCCCTCACTGTATGCCTTTAGCTCTGTAGTTGAACCCTCATATATTCTCCCAGTTCTG
TCCCTTTCCCCAACTCCAGGTTTCTTCTGCCCCCCCCCCAAATAAGACACTCATAGTCAGAGGA
TGCCACCACATTCTGTTTAGTGTTGTTCAACACAGTCTCTGCCCTTCTCCAACATGGGTTCCTT
CCACCACCCCAGGCTAAGACATTGAGGCCTAGGTAGGAGGACTAGCAGGGGGCATCCAAGCCCA
TGCCCATGTGTATATAATCTATAATACTTATATATATTTATATAGAATTCTCTCTGTCATATAT
GTCATAGAATCCTTCCTGGGCCTGGGGTGAGAGTTTCACATTAAGAAAACATGCTAAGACTGAC
CATAAAAATGGGTATTTCTCAGACCTGGAAAACAGAGTGTGGGATCTATATGAACAAGGCTAAG
AACTCGTCCTTCAAGATTCCCTTCTTAACACAAGGGAAAGAAAGAAGGTGTGTGGGCTGGGGGA
GGCAATGGGAGGGAAGGAATGGAAGGTTTGGATTTTCATTTAATAAAGTCAATTGAAAATGAA

hide sequence

RefSeq Acc Id:

XM_039107135 ⟹ XP_038963063

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	72,138,741 - 72,168,113 (+)	NCBI
mRatBN7.2	4	71,171,975 - 71,201,483 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_037279	(Get FASTA)	NCBI Sequence Viewer
	XP_008761095	(Get FASTA)	NCBI Sequence Viewer
	XP_038963063	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAM77485	(Get FASTA)	NCBI Sequence Viewer
	AAM77486	(Get FASTA)	NCBI Sequence Viewer
	AAM77487	(Get FASTA)	NCBI Sequence Viewer
	AAM77488	(Get FASTA)	NCBI Sequence Viewer
	AAM77489	(Get FASTA)	NCBI Sequence Viewer
	CAA44683	(Get FASTA)	NCBI Sequence Viewer
	EDM15504	(Get FASTA)	NCBI Sequence Viewer
	EDM15505	(Get FASTA)	NCBI Sequence Viewer
	EDM15506	(Get FASTA)	NCBI Sequence Viewer
	EDM15507	(Get FASTA)	NCBI Sequence Viewer
	EDM15508	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000043372
	ENSRNOP00000087495
	ENSRNOP00000103689
GenBank Protein	P35524	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_037279 ⟸ NM_013147

- UniProtKB:

P35524 (UniProtKB/Swiss-Prot), F1LPY4 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MERSQSQQHGGEQSWWGTAPQYQYMPFEHCTSYGLPSENGGLQHRPRKDLGPRHNAHPTQIYGH
HKEQYSYQAQDRGIPKKTDSSSTVDSLDEDHYSKCQDCVHRLGRVLRRKLGEDWIFLVLLGLLM
ALVSWCMDYVSAKSLQAYKWTYAQMQPSLPLQYLAWVTFPLILILFSALFCQLISPQAVGSGIP
EMKTILRGVVLKEYLTLKAFVAKVVALTAGLGSGIPVGKEGPFVHIASICAAVLSKFMSMFSGV
YEQPYYYTDILTVGCAVGVGCCFGTPLGGVLFSIEVTSTYFAVRNYWRGFFAATFSAFVFRVLA
VWNKDAVTITALFRTNFRMDFPFDLKELPAFAVIGICCGFLGAVFVYLHRQVMLGVRKHKALSQ
FLAKHRLLYPGIVTFVIASLTFPPGMGQFMAGELMPREAISTLFDNNTWVKHIGDPKSLGQSAV
WIHPQVNVVIIILLFFVMKFWMSIVATTMPIPCGGFMPVFVLGAAFGRLVGEIMAMLFPEGILF
DDIIYKILPGGYAVIGAAALTGAVSHTVSTAVICFELTGQIAHILPMMVAVILANMVAQSLQPS
LYDSIIQVKKLPYLPDLGWNQLSKFTIFVEDIMVRDVKFVSASCTYGELRNLLQTTTVKTLPLV
DSKDSMILLGSVERSELQSLLQRHLCAERRLKAAQDMARKLSELPYNGQAQLAGEWHPGGRPES
FAFVDEDEDEDVSRKTELPQTPTPPPPPPPPLPPQFPIAPSYPEEPNGPLPSHKQPPEASDSAD
QRSSIFQRLLHCLLGKAHSTKKKITQDSTDLVDNMSPEEIEAWEREQLSQPVCFDFCCIDQSPF
QLVEQTTLHKTHTLFSLLGLHLAYVTSMGKLRGVLALEELQKAIKGHTKSGVQLRPPLASFRNT
TSIRKTPGGPPPPAESWNVPEGEDGAPEREVMVPTMPETPVPPPSPEVPSCLAPARVEGELEEL
EMVGNLGPEEDLADILHGPSLRSTDEEDEDELIL

hide sequence

RefSeq Acc Id:	XP_008761095 ⟸ XM_008762873
- Peptide Label:	isoform X2
- UniProtKB:	F1LPY4 (UniProtKB/TrEMBL)
- Sequence:	show sequence MERSQSQQHGGEQSWWGTAPQYQYMPFEHCTSYGLPSENGSLQHRPRKDLGPRHNAHPTQIYGH HKEQYSYQAQDRGIPKKTDSSSTVDSLDEDHYSKCQDCVHRLGRVLRRKLGEDWIFLVLLGLLM ALVSWCMDYVSAKSLQAYKWTYAQMQPSLPLQYLAWVTFPLILILFSALFCQLISPQAVGSGIP EMKTILRGVVLKEYLTLKAFVAKVVALTAGLGSGIPVGKEGPFVHIASICAAVLSKFMSMFSGV YEQPYYYTDILTVGCAVGVGCCFGTPLGGVLFSIEVTSTYFAVRNYWRGFFAATFSAFVFRVLA VWNKDAVTITALFRTNFRMDFPFDLKELPAFAVIGRLLYPGIVTFVIASLTFPPGMGQFMAGEL MPREAISTLFDNNTWVKHIGDPKSLGQSAVWIHPQVNVVIIILLFFVMKFWMSIVATTMPIPCG GFMPVFVLGAAFGRLVGEIMAMLFPEGILFDDIIYKILPGGYAVIGAAALTGAVSHTVSTAVIC FELTGQIAHILPMMVAVILANMVAQSLQPSLYDSIIQVKKLPYLPDLGWNQLSKFTIFVEDIMV RDVKFVSASCTYGELRNLLQTTTVKTLPLVDSKDSMILLGSVERSELQSLLQRHLCAERRLKAA QDMARKLSELPYNGQAQLAGEWHPGGRPESFAFVDEDEDEDVSRKTELPQTPTPPPPPPPPLPP QFPIAPSYPEEPNGPLPSHKQPPEASDSADQRSSIFQRLLHCLLGKAHSTKKKITQDSTDLVDN MSPEEIEAWEQEQLSQPVCFDFCCIDQSPFQLVEQTTLHKTHTLFSLLGLHLAYVTSMGKLRGV LALEELQKAIKGHTKSGVQLRPPLASFRNTTSIRKTPGGPPPPAESWNVPEGEDGAPEREVMVP TMPETPVPPPSPEVPSCLAPARVEGELEELEMVGNLGPEEDLADILHGPSLRSTDEEDEDELIL hide sequence

Ensembl Acc Id:

ENSRNOP00000043372 ⟸ ENSRNOT00000051265

RefSeq Acc Id:	XP_038963063 ⟸ XM_039107135
- Peptide Label:	isoform X1
- UniProtKB:	F1LPY4 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000087495 ⟸ ENSRNOT00000104906

Ensembl Acc Id:

ENSRNOP00000103689 ⟸ ENSRNOT00000144769

Protein Domains

CBS

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-P35524-F1-model_v2	AlphaFold	P35524	1-994	view protein structure

Transcriptome

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

Promoters

RGD ID:

13693009

Promoter ID:

EPDNEW_R3532

Type:

single initiation site

Name:

Clcn1_1

Description:

chloride voltage-gated channel 1

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	4	71,675,365 - 71,675,425	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:2360	AgrOrtholog
BioCyc Gene	G2FUF-45091	BioCyc
Ensembl Genes	ENSRNOG00000016917	Ensembl, ENTREZGENE
Ensembl Transcript	ENSRNOT00000051265	ENTREZGENE
	ENSRNOT00000104906	ENTREZGENE
	ENSRNOT00000144769	ENTREZGENE
Gene3D-CATH	3.10.580.10	UniProtKB/Swiss-Prot
	Clc chloride channel	UniProtKB/Swiss-Prot
InterPro	CBS_dom	UniProtKB/Swiss-Prot
	CBS_dom_sf	UniProtKB/Swiss-Prot
	Cl-channel_core	UniProtKB/Swiss-Prot
	Cl-channel_volt-gated	UniProtKB/Swiss-Prot
	Cl_channel-1	UniProtKB/Swiss-Prot
	Cl_channel_volt-gated	UniProtKB/Swiss-Prot
KEGG Report	rno:25688	UniProtKB/Swiss-Prot
NCBI Gene	25688	ENTREZGENE
PANTHER	CHLORIDE CHANNEL PROTEIN 1	UniProtKB/Swiss-Prot
	CHLORIDE CHANNEL PROTEIN 2	UniProtKB/Swiss-Prot
Pfam	Voltage_CLC	UniProtKB/Swiss-Prot
PhenoGen	Clcn1	PhenoGen
PRINTS	CLCHANNEL	UniProtKB/Swiss-Prot
	CLCHANNEL1	UniProtKB/Swiss-Prot
PROSITE	CBS	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000016917	RatGTEx
Superfamily-SCOP	SSF54631	UniProtKB/Swiss-Prot
	SSF81340	UniProtKB/Swiss-Prot
UniProt	A0A8I6A8S1_RAT	UniProtKB/TrEMBL
	A0ABK0LE59_RAT	UniProtKB/TrEMBL
	A6IF68_RAT	UniProtKB/TrEMBL
	A6IF69_RAT	UniProtKB/TrEMBL
	A6IF70_RAT	UniProtKB/TrEMBL
	CLCN1_RAT	UniProtKB/Swiss-Prot
	F1LPY4	ENTREZGENE, UniProtKB/TrEMBL
	P35524	ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-11	Clcn1	chloride voltage-gated channel 1	Clcn1	chloride channel, voltage-sensitive 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-07-16	Clcn1	chloride channel, voltage-sensitive 1	Clcn1	chloride channel 1, skeletal muscle	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-01-09	Clcn1	chloride channel 1, skeletal muscle	Clcn1	chloride channel 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2002-11-06	Clcn1	chloride channel 1		Chloride channel 1 (skeletal muscle)	Name updated	625702	APPROVED
2002-06-10	Clcn1	Chloride channel 1 (skeletal muscle)			Symbol and Name status set to approved	70586	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_disease	mutation of the human homolog causes both autosomal dominant (Thomsen's disease) and autosomal recessive (Becker's disease) forms of myotonia congenita	704389

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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