Advanced Search (OLGA)

Gene: Clca4 (chloride channel accessory 4) Rattus norvegicus

Analyze

Symbol:

Clca4

Name:

chloride channel accessory 4

RGD ID:

1303234

Description:

Predicted to enable intracellularly calcium-gated chloride channel activity. Predicted to be involved in chloride transmembrane transport and proteolysis. Predicted to act upstream of or within chloride transport. Predicted to be located in membrane. Predicted to be active in plasma membrane. Orthologous to human CLCA4 (chloride channel accessory 4); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 3,3',5,5'-tetrabromobisphenol A.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

calcium-activated chloride channel regulator 4; chloride channel calcium activated 4; chloride channel calcium activated 6; chloride channel regulator 4; chloride channel, calcium activated, family member 4; Clca6; parturition-related protein PRP3; Prp3

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):	CLCA4 (chloride channel accessory 4)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Clca4a (chloride channel accessory 4A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CLCA4 (chloride channel accessory 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CLCA4 (chloride channel accessory 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CLCA4 (calcium-activated chloride channel regulator 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CLCA4 (chloride channel accessory 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Clca4 (chloride channel accessory 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	CLCA1 (chloride channel accessory 1)	HGNC	OrthoDB
Alliance orthologs ³
Homo sapiens (human):	CLCA4 (chloride channel accessory 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Clca4a (chloride channel accessory 4A)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Clca4b (chloride channel accessory 4B)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	clca1 (chloride channel accessory 1)	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	clca5.2 (chloride channel accessory 5, tandem duplicate 2)	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	clca3p	Alliance	DIOPT (OrthoFinder\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	clca1.1	Alliance	DIOPT (Hieranoid\|OrthoFinder\|PANTHER)
Xenopus tropicalis (tropical clawed frog):	clca1.1	Alliance	DIOPT (Hieranoid\|OrthoFinder\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	clca1.3	Alliance	DIOPT (Hieranoid\|OrthoFinder\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	clca4.1	Alliance	DIOPT (Hieranoid\|OrthoFinder\|PANTHER)
Xenopus tropicalis (tropical clawed frog):	clca4.1	Alliance	DIOPT (Hieranoid\|OrthoFinder\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	clca1.2	Alliance	DIOPT (Hieranoid\|OrthoFinder\|PANTHER\|PhylomeDB)

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	2	236,543,975 - 236,565,096 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	2	236,544,201 - 236,563,435 (-)	Ensembl				GRCr8
mRatBN7.2	2	233,883,625 - 233,904,993 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	233,883,851 - 233,903,089 (-)	Ensembl				mRatBN7.2
Rnor_6.0	2	250,842,939 - 250,864,060 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	250,843,165 - 250,862,419 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	2	269,371,177 - 269,392,072 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	2	243,002,320 - 243,023,215 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	2	225,872,978 - 225,893,873 (-)	NCBI		Celera
RGSC_v3.1	2	242,989,059 - 243,009,955 (-)	NCBI
Cytogenetic Map	2	q44	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autistic disorder (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(2,4,5-trichlorophenoxy)acetic acid (ISO)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP)

17beta-estradiol (EXP,ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2,4,6-trinitrobenzenesulfonic acid (ISO)

3,3',5,5'-tetrabromobisphenol A (EXP)

4,4'-sulfonyldiphenol (ISO)

aflatoxin B1 (ISO)

ampicillin (EXP)

antirheumatic drug (ISO)

arsenic acid (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

carnosic acid (ISO)

copper(II) sulfate (ISO)

curcumin (ISO)

dextran sulfate (ISO)

dimethylarsinic acid (ISO)

furan (EXP)

gentamycin (EXP)

hydroquinone (ISO)

methylarsonic acid (ISO)

metronidazole (EXP)

neomycin (EXP)

nickel atom (ISO)

ozone (ISO)

pirinixic acid (ISO)

progesterone (ISO)

silicon dioxide (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

trichloroethene (EXP)

triptonide (ISO)

valproic acid (ISO)

vancomycin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chloride transmembrane transport (IEA)

chloride transport (IEA,ISO)

monoatomic ion transmembrane transport (IEA)

proteolysis (IEA)

Cellular Component

plasma membrane (IBA,ISO)

Molecular Function

chloride channel activity (ISO)

hydrolase activity (IEA)

intracellularly calcium-gated chloride channel activity (IBA,IEA)

ligand-gated monoatomic ion channel activity (ISO)

metal ion binding (IEA)

metallopeptidase activity (IEA)

peptidase activity (IEA)

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.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:15284223	PMID:19144963	PMID:23376485

Genomics

Comparative Map Data

Clca4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	236,543,975 - 236,565,096 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	2	236,544,201 - 236,563,435 (-)	Ensembl				GRCr8
mRatBN7.2	2	233,883,625 - 233,904,993 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	233,883,851 - 233,903,089 (-)	Ensembl				mRatBN7.2
Rnor_6.0	2	250,842,939 - 250,864,060 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	250,843,165 - 250,862,419 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	2	269,371,177 - 269,392,072 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	2	243,002,320 - 243,023,215 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	2	225,872,978 - 225,893,873 (-)	NCBI		Celera
RGSC_v3.1	2	242,989,059 - 243,009,955 (-)	NCBI
Cytogenetic Map	2	q44	NCBI

CLCA4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	86,547,078 - 86,580,754 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	86,547,076 - 86,580,758 (+)	Ensembl			hg38	GRCh38
GRCh37	1	87,012,761 - 87,046,437 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	86,785,347 - 86,819,025 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	1	86,724,781 - 86,758,451	NCBI
Celera	1	85,256,746 - 85,290,417 (+)	NCBI		Celera
Cytogenetic Map	1	p22.3	NCBI
HuRef	1	85,123,236 - 85,156,884 (+)	NCBI		HuRef
CHM1_1	1	87,127,607 - 87,161,285 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	1	86,387,119 - 86,420,795 (+)	NCBI		T2T-CHM13v2.0

Clca4a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	3	144,658,247 - 144,680,806 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	3	144,658,241 - 144,680,806 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	3	144,952,486 - 144,975,045 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	3	144,952,480 - 144,975,045 (-)	Ensembl			mm10	GRCm38
MGSCv37	3	144,615,450 - 144,638,009 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	3	144,890,061 - 144,912,397 (-)	NCBI		MGSCv36	mm8
Celera	3	151,393,608 - 151,416,192 (-)	NCBI		Celera
Cytogenetic Map	3	H2	NCBI
cM Map	3	69.22	NCBI

CLCA4
(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	1	140,379,779 - 140,446,580 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	139,535,186 - 139,601,980 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	119,077,318 - 119,111,027 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	87,930,549 - 87,964,225 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	87,930,549 - 87,964,218 (+)	Ensembl			panPan2	panpan1.1

CLCA4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	6	61,559,472 - 61,584,601 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	6	61,559,738 - 61,584,177 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	6	64,273,532 - 64,298,313 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	6	62,099,324 - 62,124,119 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	6	62,099,597 - 62,124,493 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	6	61,632,408 - 61,657,193 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	6	61,595,579 - 61,620,375 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	6	62,096,317 - 62,126,025 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

CLCA4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	129,491,594 - 129,599,410 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	4	129,562,573 - 129,593,123 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	142,080,452 - 142,110,275 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CLCA4
(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	20	46,856,330 - 46,890,832 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	20	46,856,232 - 46,890,515 (-)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666033	70,921,065 - 70,954,895 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Clca4
(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	3	15,877,511 - 15,897,022 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Clca4
447 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	31
Count of miRNA genes:	30
Interacting mature miRNAs:	30
Transcripts:	ENSRNOT00000017943
Prediction methods:	Miranda, Rnahybrid
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
1331734	Bp204	Blood pressure QTL 204	3.61192		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	170656145	239614549	Rat
631501	Bp101	Blood pressure QTL 101	2.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	205135267	250135267	Rat
2307174	Activ3	Activity QTL 3	4.83	0.000058	locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	2	210956252	251712708	Rat
1598813	Memor9	Memory QTL 9	2.7		exploratory behavior trait (VT:0010471)	average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)	2	202029709	236904960	Rat
8693697	Alc36	Alcohol consumption QTL 36	2	0.592	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	2	219814164	239320906	Rat
1331794	Bp202	Blood pressure QTL 202	3.66819		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	143344967	251712708	Rat
1298075	Scl17	Serum cholesterol level QTL 17	3.4		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	2	214404877	251712708	Rat
1331805	Cm29	Cardiac mass QTL 29	3.50746		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	2	143344967	251712708	Rat
1300126	Bp175	Blood pressure QTL 175	3.46		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	204795005	249795005	Rat
7207484	Bss108	Bone structure and strength QTL 108	5.3		femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	2	214404877	251712708	Rat
2313073	Bmd75	Bone mineral density QTL 75	4.1	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	2	218051934	251712708	Rat
61398	Bp50	Blood pressure QTL 50	4.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	192287802	237287802	Rat
7207482	Bss107	Bone structure and strength QTL 107	7		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	2	214404877	251712708	Rat
61467	Bp14	Blood pressure QTL 14	2.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	205135267	250135267	Rat
1549836	Bss2	Bone structure and strength QTL 2	7.5		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	2	214404877	251712708	Rat
2317752	Glom23	Glomerulus QTL 23	3.6		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	2	196140964	251540988	Rat
70175	BpQTLCluster3	Blood pressure QTL cluster 3	4.128		arterial blood pressure trait (VT:2000000)	absolute change in systolic blood pressure (CMO:0000607)	2	205135267	250135267	Rat
1331767	Hrtrt12	Heart rate QTL 12	3.373		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	2	221088977	243501206	Rat
2293833	Kiddil8	Kidney dilation QTL 8	2.9		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	2	220274283	249795005	Rat
1598835	Anxrr18	Anxiety related response QTL 18	2.98		body movement coordination trait (VT:0005424)	number of rearing movements in an experimental apparatus (CMO:0001752)	2	203664411	248664411	Rat
7207490	Bss111	Bone structure and strength QTL 111	6.4		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	2	214404877	251712708	Rat
8693622	Alc26	Alcohol consumption QTL 26	2.4	0.667	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	2	223810546	243965570	Rat
61366	Iddm3	Insulin dependent diabetes mellitus QTL 3	4.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	2	192287802	237287802	Rat
2293844	Kiddil7	Kidney dilation QTL 7	3.5		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	2	220274283	249795005	Rat
1641891	Alcrsp17	Alcohol response QTL 17			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	2	151869660	251712708	Rat

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	3	8	67	57	52	27	38	27	6	192	68	5	45	79	78	25	2	2

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001439807	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_201419	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063282230	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063282231	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC118528	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY333961	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000002	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000017943 ⟹ ENSRNOP00000017943

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	2	236,544,201 - 236,563,435 (-)	Ensembl
mRatBN7.2 Ensembl	2	233,883,851 - 233,903,089 (-)	Ensembl
Rnor_6.0 Ensembl	2	250,843,165 - 250,862,419 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000103694 ⟹ ENSRNOP00000076720

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	2	233,883,851 - 233,902,216 (-)	Ensembl

RefSeq Acc Id:

NM_201419 ⟹ NP_958822

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	2	236,544,201 - 236,565,096 (-)	NCBI
mRatBN7.2	2	233,883,851 - 233,904,750 (-)	NCBI
Rnor_6.0	2	250,843,165 - 250,864,060 (-)	NCBI
Rnor_5.0	2	269,371,177 - 269,392,072 (-)	NCBI
RGSC_v3.4	2	243,002,320 - 243,023,215 (-)	RGD
Celera	2	225,872,978 - 225,893,873 (-)	RGD

Sequence:

show sequence

ATGTACCTCCCACCTCGATGTGACCAAGCATATCCTAAGCAACTTTCTGTACTGACATGAGTGA
AAATATGTGATGTTATCTTACACGAACACAGCCTCAGCATTCCAGGAAGTTGTCCTTGGGCAGA
GCCATAAACCAATGCTGCGCTCAGCCAAGCTCAGAGAAGCCTTCCTTTGCACGGACTAGAGAGA
ATGCAGAGACCGTGGCTACTAACAGTGCAAGCAGGTGATTTTTAGGCGTATATATACACCTGAC
AAGAGACACAGAGAAAGAAAGGCTGCGACGAGGCCGGAATGATGGGGTTCTCCAGAGGGATTGT
TTTCCTCCTGCTCCTGTACCTGCTTCAGGGGTCAGACACCTCCTTGGTAAAGCTGAATGAGAAT
GGTTATGAAGACATTATTATTGCCATCGATCCTGCTGTGTCCGAAGATGTAACAATAATTGACC
AAATAAAGGACATGGTGACTAAAGCATCTGCATACCTTTTTGAAGCTACAGAAAAAAGATTTTT
TTTCAAAAACGTCTCTATATTAATTCCTGAGAATTGGACAAACAGTGACCAGTACAGGAGGCCA
AAGCAGGAAAGCTACAAACATGCTGACATTAAAGTTGCACCTCCTGCTCTCCAGGGCAGGGATG
AGCCCTACACCCGGCAGTTCACAAAGTGTGGAAAGAAAGCTGAATACATCCACTTCACCCCCGA
CTTTGTATTGGGGAGAAAACAAAAGGAATATGGAGATTCAGGAAGACTGTTGGTCCATGAATGG
GCCCATCTTCGCTGGGGAGTATTTGATGAGTACAACGAAGACCAGCCATTCTACAGTGCTTCAT
CAAAGAAAATCGAAGCAACAAGGTGTTCCACAGGTATCAAGGGTATGAATAAAGCCCAGGTATG
CCAAGGGGGCAGCTGTATAACCAGAAATTGCAGACGGAATTCCACCACACAGTTATATGAAAAA
GATTGTCAGTTCTTCCCGGATAAAGTTCAAACAGAAAAGTCATCTATAATGTTCATGCAAAGTA
TCGATTCAGTGACTGAATTCTGTAAAAAAGAAAACCATAATCGAGAGGCTCCAACTCTACATAA
TCAGAAGTGCGATTACAGAAGCACATGGGAAGTAATCAGTAATTCTGAGGATTTTAAAAACAGC
ACACCCATGGAGATGCCACCCTCTCCACCCTTCTTCTCGCTGCTGAGGATCAGTGAAAGAATTG
TGTGCCTAGTGCTTGATGTGTCTGGGAGCATGGGGTCTTATGATCGCCTCAATCGAATGAACCA
AGCAGCAAAATTCTTCCTACAGCAGATACTTGAAAGTAGGTCCTGGGCAGGGATGGTACACTTT
CATAGCTCGGCCACTGTTAAGAGTGAGCTGATCCAAATAAACAGTGATGTCGAGAGAAACCAGC
TTTTGGAAACCTTACCTACAAGTGCTAGCGGAGGGACATCCATCTGCTCTGGAATCAGAACTGC
ATTTCAGGTATTTAAAAATAAAGGATACCAAACTGGTGGGAATGACATCTTGCTGTTGAGCGAT
GGGGAGGACAGCACAGCCAAAGACTGCCTTGATGAGGTGAAAGACAGCGGGGCCGTAGTTCATT
TCATTGCCTTGGGAAAAGCATTTGATCAATCTATATCAAACATGGCCAACGTAACAGGTGGAAA
GCAACTGTTTGCTACAGATGAAGCCCAGAACAATGGACTCATTGATGCTTTCGGGGCCCTGGCT
TCAGAAAATGCTGATGTCACTGAGAAGTCCCTTCAGCTTGAAAGCAAGGGTGCTGTGTTGACCA
ACAGTCGCTGGCTGAACGACACTGTCGTTATTGACAGCACCGTGGGAAAGGACACATACTTTCT
TGTCACCTGGAGCCAACAAGCCCCTGCCATTCATCTCAGGGATCCCAAAGGAACACAAATAACA
AATTTCACAATCGACACGGCTTCCAAAATGGCCTATCTCACTATCCCAGGAATTGCTGAGGTCG
GCGTTTGGACTTACAACCTTGAAGCCAAAGTAGACTCAGAGATACTAACAATTACAGTAACTTC
TCGGGCATCACGTCCTTCTGTGCCACCCATCATTGTAAATGCAAAAGTTAACACAGACACGAAC
AGTTTCCCCAGTCCAATGATTGTGTATGCAGAAGTTCTACAAGGTTACACTCCCATCATTGGAG
CACGCGTGACAGCTACCATAGAATCAAATAGTGGAAAAACAGAAGAGCTAGTACTGCTGGACAA
TGGTGCAGGGGCTGATGCTTTCAAGGATGACGGGGTCTACTCCAGGTACTTCACGGCTTATTCA
GATAATGGCAGATATAGCGTAAAGGTCCGCGCAGACGGAGGAACAAACTCTGCCCGGAGAAGTT
CACGGCATCCGTCCAGCAGAGCGGCATACATACCAGGCTGGGTAGTGGATGGAGAAATTCAAGG
GAACCCACCCAGACCTGAAACTACTGAGGACACTCAGCCCGTCCTGGAGAATTTCAGCAGGACG
GCATCTGGAGGTGCCTTTGTGATGTCCAAGGTCCCAGCTCTTCCATTGCCTGATCAGTACCCAC
CAAATCAAATCACAGACCTCCAGGCCACACTTGATGGGGAAAAGATCAGTCTAACATGGACGGC
ACCAGGAGATGACTTTGATGTTGGAAGAGTTCAACAGTATATCATAAGAACAAGTGAAAATATC
ATTGACCTCAGAGACAATTTTAATAAGTCTCTTCAGGTTAATACAACTCACCTGATACCAAAAG
AAGCCAACTCCAAGGAAACCTTTGCCTTTAAACCAGAAACTATCTCAGGAGAAAACGCAACCTA
CATATTCATTGCCATTGAAAGTGTCGACAAAAGCAATTTGCACTCCGGACTGTCCAACATCGCA
CAAGTAGCACTGTTCACCCCTCAGGCAGATCCTGTCCCTGAGGAAAGTCCCCAGTCTGGAGTTA
GTATCACTACGATTGTGCTGTCTGTGGTGGGCGCCGTTGTACTAGTTTGTATCATTGTAAGTAC
CACTGTTTGTATCTTAAAGAGAAAAAGGTCCTCCTCAGGGCCTGCAACAACATTTTAAAAAGCA
ACATCAGGGCTGGAGAGATGGCTCA

hide sequence

RefSeq Acc Id:

XM_063282230 ⟹ XP_063138300

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	2	236,543,975 - 236,564,995 (-)	NCBI

RefSeq Acc Id:

XM_063282231 ⟹ XP_063138301

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	2	236,543,975 - 236,563,393 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001426736	(Get FASTA)	NCBI Sequence Viewer
	NP_958822	(Get FASTA)	NCBI Sequence Viewer
	XP_063138300	(Get FASTA)	NCBI Sequence Viewer
	XP_063138301	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAR01113	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000017943
	ENSRNOP00000017943.4

RefSeq Acc Id:	NP_958822 ⟸ NM_201419
- Peptide Label:	precursor
- UniProtKB:	Q6VPP3 (UniProtKB/TrEMBL), A0A8I5ZJ95 (UniProtKB/TrEMBL)
- Sequence:	show sequence MMGFSRGIVFLLLLYLLQGSDTSLVKLNENGYEDIIIAIDPAVSEDVTIIDQIKDMVTKASAYL FEATEKRFFFKNVSILIPENWTNSDQYRRPKQESYKHADIKVAPPALQGRDEPYTRQFTKCGKK AEYIHFTPDFVLGRKQKEYGDSGRLLVHEWAHLRWGVFDEYNEDQPFYSASSKKIEATRCSTGI KGMNKAQVCQGGSCITRNCRRNSTTQLYEKDCQFFPDKVQTEKSSIMFMQSIDSVTEFCKKENH NREAPTLHNQKCDYRSTWEVISNSEDFKNSTPMEMPPSPPFFSLLRISERIVCLVLDVSGSMGS YDRLNRMNQAAKFFLQQILESRSWAGMVHFHSSATVKSELIQINSDVERNQLLETLPTSASGGT SICSGIRTAFQVFKNKGYQTGGNDILLLSDGEDSTAKDCLDEVKDSGAVVHFIALGKAFDQSIS NMANVTGGKQLFATDEAQNNGLIDAFGALASENADVTEKSLQLESKGAVLTNSRWLNDTVVIDS TVGKDTYFLVTWSQQAPAIHLRDPKGTQITNFTIDTASKMAYLTIPGIAEVGVWTYNLEAKVDS EILTITVTSRASRPSVPPIIVNAKVNTDTNSFPSPMIVYAEVLQGYTPIIGARVTATIESNSGK TEELVLLDNGAGADAFKDDGVYSRYFTAYSDNGRYSVKVRADGGTNSARRSSRHPSSRAAYIPG WVVDGEIQGNPPRPETTEDTQPVLENFSRTASGGAFVMSKVPALPLPDQYPPNQITDLQATLDG EKISLTWTAPGDDFDVGRVQQYIIRTSENIIDLRDNFNKSLQVNTTHLIPKEANSKETFAFKPE TISGENATYIFIAIESVDKSNLHSGLSNIAQVALFTPQADPVPEESPQSGVSITTIVLSVVGAV VLVCIIVSTTVCILKRKRSSSGPATTF hide sequence

Ensembl Acc Id:

ENSRNOP00000017943 ⟸ ENSRNOT00000017943

Ensembl Acc Id:

ENSRNOP00000076720 ⟸ ENSRNOT00000103694

RefSeq Acc Id:	XP_063138300 ⟸ XM_063282230
- Peptide Label:	isoform X1
- UniProtKB:	Q6VPP3 (UniProtKB/TrEMBL), A0A8I5ZJ95 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063138301 ⟸ XM_063282231
- Peptide Label:	isoform X2

Protein Domains

VWFA

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q6VPP3-F1-model_v2	AlphaFold	Q6VPP3	1-923	view protein structure

Transcriptome

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

Promoters

RGD ID:

13691804

Promoter ID:

EPDNEW_R2329

Type:

multiple initiation site

Name:

Clca4_1

Description:

chloride channel accessory 4

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	2	250,862,348 - 250,862,408	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1303234	AgrOrtholog
BioCyc Gene	G2FUF-50933	BioCyc
Ensembl Genes	ENSRNOG00000029889	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000017943	ENTREZGENE
	ENSRNOT00000017943.6	UniProtKB/TrEMBL
Gene3D-CATH	2.60.40.10	UniProtKB/TrEMBL
	3.40.50.410	UniProtKB/TrEMBL
InterPro	CaCC_prot	UniProtKB/TrEMBL
	Cl_channel_Ca	UniProtKB/TrEMBL
	CLCR	UniProtKB/TrEMBL
	Ig-like_fold	UniProtKB/TrEMBL
	VWF_A	UniProtKB/TrEMBL
	vWFA_dom_sf	UniProtKB/TrEMBL
KEGG Report	rno:362053	UniProtKB/TrEMBL
NCBI Gene	362053	ENTREZGENE
PANTHER	CALCIUM-ACTIVATED CHLORIDE CHANNEL REGULATOR	UniProtKB/TrEMBL
	CALCIUM-ACTIVATED CHLORIDE CHANNEL REGULATOR 4	UniProtKB/TrEMBL
Pfam	CLCA_N	UniProtKB/TrEMBL
	VWA_2	UniProtKB/TrEMBL
PhenoGen	Clca4	PhenoGen
PROSITE	VWFA	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000029889	RatGTEx
SMART	VWA	UniProtKB/TrEMBL
Superfamily-SCOP	SSF53300	UniProtKB/TrEMBL
UniProt	A0A8I5ZJ95	ENTREZGENE
	Q6VPP3	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2009-05-18	Clca4	chloride channel accessory 4	Clca4	chloride channel calcium activated 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2009-02-25	Clca4	chloride channel calcium activated 4	Clca4	chloride channel regulator 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2009-01-06	Clca4	chloride channel regulator 4	Clca4	chloride channel, calcium activated, family member 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-03	Clca4	chloride channel, calcium activated, family member 4	Clca6	chloride channel calcium activated 6	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-07-08	Clca6	chloride channel calcium activated 6	Prp3	parturition-related protein PRP3	Symbol and Name updated	1299863	APPROVED

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)

Send us a Message

Imported Disease Annotations - ClinVar