Cldn1 (claudin 1) - Rat Genome Database

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Gene: Cldn1 (claudin 1) Rattus norvegicus
Analyze
Symbol: Cldn1
Name: claudin 1
RGD ID: 68422
Description: Predicted to enable identical protein binding activity and virus receptor activity. Involved in several processes, including cellular response to butyrate; cellular response to cytokine stimulus; and endothelial cell development. Located in apical plasma membrane; bicellular tight junction; and lateral plasma membrane. Biomarker of diabetic retinopathy; liver disease (multiple); and periodontitis. Human ortholog(s) of this gene implicated in Crohn's disease and atopic dermatitis. Orthologous to human CLDN1 (claudin 1); PARTICIPATES IN hepatitis C pathway; INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: claudin-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81187,926,376 - 87,941,533 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1187,926,337 - 87,941,529 (+)EnsemblGRCr8
mRatBN7.21174,421,569 - 74,436,728 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1174,421,569 - 74,436,724 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1183,230,293 - 83,245,398 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01175,865,333 - 75,880,440 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01174,926,942 - 74,942,078 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01177,815,216 - 77,830,373 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1177,815,181 - 77,830,416 (+)Ensemblrn6Rnor6.0
Rnor_5.01182,888,890 - 82,904,926 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41176,473,654 - 76,488,809 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1173,332,294 - 73,347,451 (+)NCBICelera
RGSC_v3.11176,531,242 - 76,546,394 (+)NCBI
Cytogenetic Map11q22NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(-)-anisomycin  (ISO)
(S)-colchicine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-D  (EXP)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-palmitoylglycerol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,4,5,3',4',5'-Hexachlorobiphenyl  (EXP)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-phenylbutyric acid  (ISO)
6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxamide  (EXP,ISO)
6-O-alpha-D-glucopyranosyl-D-fructofuranose  (ISO)
6-propyl-2-thiouracil  (EXP)
8-Br-cAMP  (ISO)
acrolein  (ISO)
aflatoxin B1  (ISO)
alpha-Zearalanol  (EXP)
amitrole  (EXP)
ammonium chloride  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-naphthoflavone  (EXP,ISO)
biochanin A  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (EXP)
bisphenol F  (ISO)
bromobenzene  (EXP)
bromuconazole  (EXP)
butan-1-ol  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
capsaicin  (EXP)
carbon nanotube  (ISO)
casticin  (ISO)
CGP 52608  (ISO)
chlordecone  (ISO)
chloropicrin  (ISO)
chloroquine  (ISO)
chlorothalonil  (ISO)
cholic acid  (EXP)
chromium(6+)  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
citric acid  (ISO)
clofibric acid  (EXP)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
corn oil  (EXP,ISO)
corosolic acid  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
curcumin  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
DDE  (ISO)
decabromodiphenyl ether  (ISO)
decanoic acid  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP,ISO)
Didecyldimethylammonium  (ISO)
dimethylarsinic acid  (EXP)
disulfiram  (ISO)
diuron  (EXP)
dodecanoic acid  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
entinostat  (ISO)
epoxiconazole  (ISO)
ethanol  (EXP,ISO)
etomidate  (ISO)
fentin chloride  (EXP)
ferulic acid  (ISO)
Fexaramine  (ISO)
flutamide  (EXP)
fonofos  (ISO)
Forsythiaside  (ISO)
fragrance  (ISO)
genistein  (ISO)
gentamycin  (EXP)
ginsenoside Re  (ISO)
glycidol  (EXP)
glyphosate  (EXP)
hydrogen peroxide  (ISO)
hydroxychloroquine  (ISO)
hydroxysafflor yellow A  (ISO)
imidacloprid  (EXP)
indole-3-methanol  (EXP)
indometacin  (EXP)
irinotecan  (ISO)
isobutanol  (ISO)
ivermectin  (ISO)
lead diacetate  (EXP)
leflunomide  (ISO)
levamisole  (ISO)
lipopolysaccharide  (EXP,ISO)
lithium chloride  (ISO)
lithocholic acid  (ISO)
loxoprofen  (ISO)
lucanthone  (ISO)
luteolin  (ISO)
LY294002  (ISO)
megestrol acetate  (ISO)
methapyrilene  (EXP)
methimazole  (EXP)
methotrexate  (ISO)
methylglyoxal  (ISO)
methylmercury chloride  (ISO)
mifepristone  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
Muraglitazar  (EXP)
myricetin  (EXP)
N-acetyl-L-cysteine  (EXP,ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (ISO)
naphthalene  (EXP)
Neoisoliquiritin  (ISO)
nickel atom  (ISO)
nitrofen  (EXP)
Nonylphenol  (EXP)
ochratoxin A  (ISO)
ouabain  (ISO)
oxybenzone  (ISO)
ozone  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
parathion  (ISO)
patulin  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP,ISO)
phenethyl isothiocyanate  (ISO)
phenobarbital  (ISO)
phenol  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
potassium iodide  (EXP)
procymidone  (ISO)
progesterone  (ISO)
propiconazole  (EXP)
prothioconazole  (ISO)
Prothioconazole-desthio  (ISO)
quercetin  (EXP,ISO)
resorcinol  (ISO)
resveratrol  (EXP,ISO)
rotenone  (EXP)
rottlerin  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 203580  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium propionate  (ISO)
streptozocin  (EXP)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
tacrolimus hydrate  (ISO)
tamoxifen  (ISO)
terbufos  (ISO)
Tesaglitazar  (EXP)
tetrachloromethane  (EXP,ISO)
tetraphene  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
triadimefon  (EXP,ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
troglitazone  (EXP,ISO)
valproic acid  (EXP,ISO)
vanadyl sulfate  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
WIN 55212-2  (ISO)
withaferin A  (ISO)
zearalenone  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
apical plasma membrane  (IDA,IEA,ISO)
basolateral plasma membrane  (IEA,ISO)
bicellular tight junction  (IBA,IDA,IEA,ISO,ISS)
cell junction  (IEA,ISO)
cell-cell junction  (IEA,ISO)
lateral plasma membrane  (IDA,IEA,ISO)
membrane  (IEA)
plasma membrane  (IBA,IEA,ISO,ISS)
protein-containing complex  (IEA,ISO)
tight junction  (IEA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Proinflammatory cytokines tumor necrosis factor-alpha and interferon-gamma alter tight junction structure and function in the rat parotid gland Par-C10 cell line. Baker OJ, etal., Am J Physiol Cell Physiol. 2008 Nov;295(5):C1191-201. doi: 10.1152/ajpcell.00144.2008. Epub 2008 Sep 3.
2. In utero exposure to tributyltin alters the expression of e-cadherin and localization of claudin-1 in intercellular junctions of the rat ventral prostate. Barthelemy J, etal., Mol Reprod Dev. 2007 Apr;74(4):455-67.
3. Genetic variation in CLDN1 and susceptibility to hepatitis C virus infection. Bekker V, etal., J Viral Hepat. 2010 Mar;17(3):192-200. doi: 10.1111/j.1365-2893.2009.01166.x. Epub 2009 Aug 7.
4. Expression of claudins-1, -4, -5, -7 and occludin in hepatocellular carcinoma and their relation with classic clinicopathological features and patients' survival. Bouchagier KA, etal., In Vivo. 2014 May-Jun;28(3):315-26.
5. Loss of the atypical inflammatory response in juvenile and aged rats. Campbell SJ, etal., Neuropathol Appl Neurobiol. 2007 Feb;33(1):108-20.
6. Resveratrol attenuates high-fat diet-induced non-alcoholic steatohepatitis by maintaining gut barrier integrity and inhibiting gut inflammation through regulation of the endocannabinoid system. Chen M, etal., Clin Nutr. 2020 Apr;39(4):1264-1275. doi: 10.1016/j.clnu.2019.05.020. Epub 2019 May 30.
7. Tight junction defects in patients with atopic dermatitis. De Benedetto A, etal., J Allergy Clin Immunol. 2011 Mar;127(3):773-86.e1-7. doi: 10.1016/j.jaci.2010.10.018. Epub 2010 Dec 15.
8. Chronic alcohol ingestion alters claudin expression in the alveolar epithelium of rats. Fernandez AL, etal., Alcohol. 2007 Aug;41(5):371-9.
9. Loss of claudin-1 in lipopolysaccharide-treated periodontal epithelium. Fujita T, etal., J Periodontal Res. 2012 Apr;47(2):222-7. doi: 10.1111/j.1600-0765.2011.01424.x. Epub 2011 Nov 18.
10. 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.
11. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
12. Claudin-1 is not restricted to tight junctions in the rat epididymis. Gregory M, etal., Endocrinology 2001 Feb;142(2):854-63.
13. Transient opening of the perineurial barrier for analgesic drug delivery. Hackel D, etal., Proc Natl Acad Sci U S A. 2012 Jul 17;109(29):E2018-27. doi: 10.1073/pnas.1120800109. Epub 2012 Jun 25.
14. Claudin-1 gene mutations in neonatal sclerosing cholangitis associated with ichthyosis: a tight junction disease. Hadj-Rabia S, etal., Gastroenterology. 2004 Nov;127(5):1386-90.
15. Claudin-1 and claudin-2 differentiate fetal and embryonal components in human hepatoblastoma. Halász J, etal., Hum Pathol. 2006 May;37(5):555-61. doi: 10.1016/j.humpath.2005.12.015.
16. Loss of claudin-1 expression correlates with malignancy of hepatocellular carcinoma. Higashi Y, etal., J Surg Res. 2007 May 1;139(1):68-76. doi: 10.1016/j.jss.2006.08.038. Epub 2007 Jan 30.
17. Increased expression of claudin-1 and claudin-7 in liver cirrhosis and hepatocellular carcinoma. Holczbauer Á, etal., Pathol Oncol Res. 2014 Jul;20(3):493-502. doi: 10.1007/s12253-013-9683-4. Epub 2014 Apr 3.
18. Transforming growth factor-beta induces epithelial to mesenchymal transition by down-regulation of claudin-1 expression and the fence function in adult rat hepatocytes. Kojima T, etal., Liver Int. 2008 Apr;28(4):534-45. Epub 2007 Nov 21.
19. Altered distribution of tight junction proteins after intestinal ischaemia/reperfusion injury in rats. Li Q, etal., J Cell Mol Med. 2009 Sep;13(9B):4061-76. Epub 2009 Nov 19.
20. Alteration in intestine tight junction protein phosphorylation and apoptosis is associated with increase in IL-18 levels following alcohol intoxication and burn injury. Li X, etal., Biochim Biophys Acta. 2012 Feb;1822(2):196-203. doi: 10.1016/j.bbadis.2011.09.019. Epub 2011 Oct 7.
21. Organization of choroid plexus epithelial and endothelial cell tight junctions and regulation of claudin-1, -2 and -5 expression by protein kinase C. Lippoldt A, etal., Neuroreport. 2000 May 15;11(7):1427-31.
22. Linderae radix ethanol extract attenuates alcoholic liver injury via attenuating inflammation and regulating gut microbiota in rats. Lou Z, etal., Braz J Med Biol Res. 2019;52(6):e7628. doi: 10.1590/1414-431X20197628. Epub 2019 May 16.
23. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
24. Expression profiles of genes associated with viral entry in HCV-infected human liver. Nakamuta M, etal., J Med Virol. 2011 May;83(5):921-7. doi: 10.1002/jmv.22042.
25. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
26. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
27. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
28. Distinct claudins and associated PDZ proteins form different autotypic tight junctions in myelinating Schwann cells. Poliak S, etal., J Cell Biol 2002 Oct 28;159(2):361-72.
29. Increase in the tight junction protein claudin-1 in intestinal inflammation. Poritz LS, etal., Dig Dis Sci. 2011 Oct;56(10):2802-9. doi: 10.1007/s10620-011-1688-9. Epub 2011 Jul 12.
30. GOA pipeline RGD automated data pipeline
31. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
32. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
33. Early lead exposure increases the leakage of the blood-cerebrospinal fluid barrier, in vitro. Shi LZ and Zheng W, Hum Exp Toxicol. 2007 Mar;26(3):159-67.
34. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
35. [Dexamethasone intensify the tight junctions in rat retinal vascular endothelial cells in vitro]. Tian JY, etal., Zhonghua Yan Ke Za Zhi. 2007 Jul;43(7):646-50.
36. Butyrate enhances intestinal epithelial barrier function via up-regulation of tight junction protein Claudin-1 transcription. Wang HB, etal., Dig Dis Sci. 2012 Dec;57(12):3126-35. doi: 10.1007/s10620-012-2259-4. Epub 2012 Jun 9.
37. Single-Nucleotide Polymorphisms of Tight Junction Component Claudin-1 Associated with Leukoaraiosis. Yadav BK and Shin BS, J Stroke Cerebrovasc Dis. 2015 Jul;24(7):1662-70. doi: 10.1016/j.jstrokecerebrovasdis.2015.03.038. Epub 2015 May 5.
38. p38 MAP-kinase regulates function of gap and tight junctions during regeneration of rat hepatocytes. Yamamoto T, etal., J Hepatol. 2005 May;42(5):707-18.
39. Dendrobium chrysotoxum Lindl. alleviates diabetic retinopathy by preventing retinal inflammation and tight junction protein decrease. Yu Z, etal., J Diabetes Res. 2015;2015:518317. doi: 10.1155/2015/518317. Epub 2015 Jan 1.
40. Examination of claudin-1 expression in patients undergoing liver transplantation owing to hepatitis C virus cirrhosis. Zadori G, etal., Transplant Proc. 2011 May;43(4):1267-71. doi: 10.1016/j.transproceed.2011.03.066.
41. MicroRNA 29 targets nuclear factor-kappaB-repressing factor and Claudin 1 to increase intestinal permeability. Zhou Q, etal., Gastroenterology. 2015 Jan;148(1):158-169.e8. doi: 10.1053/j.gastro.2014.09.037. Epub 2014 Sep 30.
Additional References at PubMed
PMID:9647647   PMID:10508613   PMID:10562289   PMID:11090614   PMID:11889141   PMID:12477932   PMID:12673830   PMID:12734665   PMID:15052661   PMID:15489334   PMID:15775979   PMID:16520537  
PMID:17251524   PMID:18036336   PMID:18197414   PMID:18208478   PMID:18367650   PMID:20089884   PMID:20164257   PMID:20375010   PMID:21388515   PMID:21626096   PMID:21983942   PMID:22275141  
PMID:22946046   PMID:23407391   PMID:23685254   PMID:23704991   PMID:25666991   PMID:25849148   PMID:26607202   PMID:27038183   PMID:27164415   PMID:28412298   PMID:30734065   PMID:34018017  
PMID:34789399   PMID:35370461   PMID:37277581  


Genomics

Comparative Map Data
Cldn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81187,926,376 - 87,941,533 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1187,926,337 - 87,941,529 (+)EnsemblGRCr8
mRatBN7.21174,421,569 - 74,436,728 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1174,421,569 - 74,436,724 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1183,230,293 - 83,245,398 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01175,865,333 - 75,880,440 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01174,926,942 - 74,942,078 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01177,815,216 - 77,830,373 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1177,815,181 - 77,830,416 (+)Ensemblrn6Rnor6.0
Rnor_5.01182,888,890 - 82,904,926 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41176,473,654 - 76,488,809 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1173,332,294 - 73,347,451 (+)NCBICelera
RGSC_v3.11176,531,242 - 76,546,394 (+)NCBI
Cytogenetic Map11q22NCBI
CLDN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383190,305,707 - 190,322,446 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3190,305,707 - 190,322,446 (-)Ensemblhg38GRCh38
GRCh373190,023,496 - 190,040,235 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363191,506,187 - 191,522,909 (-)NCBIBuild 36Build 36hg18NCBI36
Build 343191,506,195 - 191,522,917NCBI
Celera3188,453,968 - 188,470,713 (-)NCBICelera
Cytogenetic Map3q28NCBI
HuRef3187,423,222 - 187,439,968 (-)NCBIHuRef
CHM1_13189,986,455 - 190,003,201 (-)NCBICHM1_1
T2T-CHM13v2.03193,121,997 - 193,138,734 (-)NCBIT2T-CHM13v2.0
Cldn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391626,175,395 - 26,190,589 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1626,175,392 - 26,190,591 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381626,356,645 - 26,371,839 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1626,356,642 - 26,371,841 (-)Ensemblmm10GRCm38
MGSCv371626,356,737 - 26,371,925 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361626,272,000 - 26,287,188 (-)NCBIMGSCv36mm8
Celera1626,899,939 - 26,915,115 (-)NCBICelera
Cytogenetic Map16B2NCBI
cM Map1618.0NCBI
Cldn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542017,798,974 - 17,815,205 (+)Ensembl
ChiLan1.0NW_00495542017,798,974 - 17,815,049 (+)NCBIChiLan1.0ChiLan1.0
CLDN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22188,174,529 - 188,191,447 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13188,179,246 - 188,196,102 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03187,328,629 - 187,345,360 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13195,882,239 - 195,898,990 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3195,882,239 - 195,899,248 (-)EnsemblpanPan2panpan1.1
CLDN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13422,303,058 - 22,319,101 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3422,303,850 - 22,319,033 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3426,396,629 - 26,412,654 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03422,237,734 - 22,253,834 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3422,238,526 - 22,254,024 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13422,258,709 - 22,274,790 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03422,245,945 - 22,262,037 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03422,487,908 - 22,503,999 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cldn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602114,006,644 - 114,021,281 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493657898,273 - 113,153 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493657898,489 - 113,125 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLDN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13127,712,777 - 127,730,657 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.113127,714,857 - 127,730,628 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213136,971,674 - 136,987,446 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLDN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11584,518,464 - 84,533,587 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1584,516,478 - 84,532,969 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604158,103,316 - 58,119,871 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cldn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473066,885,319 - 66,903,079 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473066,885,674 - 66,902,345 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Cldn1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1411,169,980 - 11,185,025 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:1512
Count of miRNA genes:359
Interacting mature miRNAs:510
Transcripts:ENSRNOT00000002640
Prediction methods:Microtar, Miranda, 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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)114644316891443168Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)117330848796070872Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)115892833699753367Rat
10755497Bp388Blood pressure QTL 3882.76arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)113294306789836615Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)117961851999753367Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)117385089499753367Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)115441539196071021Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)115893182292356038Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)118295102896351019Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)115775483796071021Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112019354996351019Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)116796218499753367Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)116859932196497754Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)116985594399753367Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)117330831599753367Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)115107102196071021Rat

Markers in Region
AI535225  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21174,435,141 - 74,435,343 (+)MAPPERmRatBN7.2
Rnor_6.01177,828,787 - 77,828,988NCBIRnor6.0
Rnor_5.01182,890,275 - 82,890,476UniSTSRnor5.0
RGSC_v3.41176,487,223 - 76,487,424UniSTSRGSC3.4
Celera1173,345,865 - 73,346,066UniSTS
RH 3.4 Map11605.1UniSTS
Cytogenetic Map11q22UniSTS
Cldn1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21174,435,400 - 74,436,490 (+)MAPPERmRatBN7.2
Rnor_6.01177,829,046 - 77,830,135NCBIRnor6.0
Rnor_5.01182,889,128 - 82,890,217UniSTSRnor5.0
Celera1173,346,124 - 73,347,213UniSTS
Cytogenetic Map11q22UniSTS


Expression

RNA-SEQ Expression

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 12 66 144 91 90 59 66 59 6 329 165 11 123 81 92 31 3 3

Sequence


Ensembl Acc Id: ENSRNOT00000002640   ⟹   ENSRNOP00000002640
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1187,926,337 - 87,941,529 (+)Ensembl
mRatBN7.2 Ensembl1174,421,569 - 74,436,724 (+)Ensembl
Rnor_6.0 Ensembl1177,815,181 - 77,830,416 (+)Ensembl
RefSeq Acc Id: NM_031699   ⟹   NP_113887
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81187,926,376 - 87,941,533 (+)NCBI
mRatBN7.21174,421,569 - 74,436,728 (+)NCBI
Rnor_6.01177,815,216 - 77,830,373 (+)NCBI
Rnor_5.01182,888,890 - 82,904,926 (-)NCBI
RGSC_v3.41176,473,654 - 76,488,809 (+)RGD
Celera1173,332,294 - 73,347,451 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_113887 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF04850 (Get FASTA)   NCBI Sequence Viewer  
  AAH61992 (Get FASTA)   NCBI Sequence Viewer  
  EDL78117 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000002640
  ENSRNOP00000002640.3
GenBank Protein P56745 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_113887   ⟸   NM_031699
- UniProtKB: P56745 (UniProtKB/Swiss-Prot),   Q6P6V9 (UniProtKB/Swiss-Prot),   A6JRZ0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000002640   ⟸   ENSRNOT00000002640

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P56745-F1-model_v2 AlphaFold P56745 1-211 view protein structure

Transcriptome

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

Promoters
RGD ID:13698238
Promoter ID:EPDNEW_R8762
Type:initiation region
Name:Cldn1_1
Description:claudin 1
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_6.01177,815,197 - 77,815,257EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:68422 AgrOrtholog
BioCyc Gene G2FUF-20936 BioCyc
Ensembl Genes ENSRNOG00000001926 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000002640 ENTREZGENE
  ENSRNOT00000002640.6 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.140.150 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:5599462 IMAGE-MGC_LOAD
InterPro Claudin UniProtKB/Swiss-Prot
  Claudin1 UniProtKB/Swiss-Prot
  Claudin_CS UniProtKB/Swiss-Prot
  PMP22/EMP/MP20/Claudin UniProtKB/Swiss-Prot
KEGG Report rno:65129 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72393 IMAGE-MGC_LOAD
NCBI Gene 65129 ENTREZGENE
PANTHER PTHR12002 UniProtKB/Swiss-Prot
Pfam PMP22_Claudin UniProtKB/Swiss-Prot
PhenoGen Cldn1 PhenoGen
PRINTS CLAUDIN UniProtKB/Swiss-Prot
  CLAUDIN1 UniProtKB/Swiss-Prot
PROSITE CLAUDIN UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000001926 RatGTEx
TIGR TC211132
UniProt A6JRZ0 ENTREZGENE, UniProtKB/TrEMBL
  CLD1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6P6V9 ENTREZGENE
UniProt Secondary Q6P6V9 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Cldn1  claudin 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization transmembrane protein that is localized to tight junctions 634852
gene_cellular_localization associates with Pals-associated tight junction protein in paranodal loop of autotypic tight junctions of myelinating Schwann cells 634852