Cldn3 (claudin 3) - Rat Genome Database

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Gene: Cldn3 (claudin 3) Rattus norvegicus
Analyze
Symbol: Cldn3
Name: claudin 3
RGD ID: 68425
Description: Predicted to enable identical protein binding activity. Involved in response to Gram-positive bacterium and response to ethanol. Located in bicellular tight junction and lateral plasma membrane. Biomarker of peptic esophagitis. Orthologous to human CLDN3 (claudin 3); PARTICIPATES IN hepatitis C pathway; INTERACTS WITH (+)-schisandrin B; 2,2',5,5'-tetrachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: claudin-3; RVP1; ventral prostate.1 protein
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81227,345,075 - 27,346,547 (-)NCBIGRCr8
mRatBN7.21221,708,538 - 21,710,010 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1221,708,398 - 21,711,001 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1222,849,399 - 22,850,871 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01223,461,727 - 23,463,199 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01222,529,747 - 22,531,219 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01221,831,341 - 21,832,813 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1221,831,342 - 21,832,813 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01223,849,259 - 23,850,731 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1223,471,431 - 23,472,903 (-)NCBICelera
Cytogenetic Map12q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-dinitrotoluene  (EXP)
3-Nitrobenzanthrone  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antigen  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
bexarotene  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bromobenzene  (EXP)
butanal  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
calcitriol  (ISO)
capecitabine  (ISO)
carbamazepine  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
cordycepin  (ISO)
coumarin  (ISO)
cyclosporin A  (ISO)
deoxynivalenol  (ISO)
diallyl disulfide  (ISO)
diallyl trisulfide  (ISO)
dibenzo[a,l]pyrene  (ISO)
dicrotophos  (ISO)
dicyclanil  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
doxifluridine  (ISO)
endosulfan  (EXP)
epoxiconazole  (ISO)
folic acid  (ISO)
fumonisin B1  (ISO)
furan  (EXP)
genistein  (EXP)
glycidol  (EXP)
hydrogen peroxide  (ISO)
isoflavones  (ISO)
kojic acid  (ISO)
lipopolysaccharide  (ISO)
loxoprofen  (ISO)
melanins  (ISO)
menadione  (ISO)
metacetamol  (ISO)
metformin  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
naphthalene  (ISO)
nickel atom  (ISO)
nitrofen  (EXP)
ochratoxin A  (ISO)
ozone  (ISO)
paclitaxel  (ISO)
palmitoyl ethanolamide  (ISO)
paracetamol  (ISO)
patulin  (ISO)
pentachlorophenol  (ISO)
pentanal  (ISO)
phenobarbital  (EXP)
PhIP  (EXP)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
propanal  (ISO)
pyridaben  (ISO)
rotenone  (EXP)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
sanguinarine  (ISO)
sodium arsenite  (ISO)
T-2 toxin  (ISO)
tamoxifen  (ISO)
tetrachloroethene  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
triptonide  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Isolation and characterization of transcripts induced by androgen withdrawal and apoptotic cell death in the rat ventral prostate. Briehl MM and Miesfeld RL, Mol Endocrinol 1991 Oct;5(10):1381-8.
2. Chronic alcohol ingestion alters claudin expression in the alveolar epithelium of rats. Fernandez AL, etal., Alcohol. 2007 Aug;41(5):371-9.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Bifidobacterium bifidum improves intestinal integrity in a rat model of necrotizing enterocolitis. Khailova L, etal., Am J Physiol Gastrointest Liver Physiol. 2009 Aug 27.
6. 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.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
9. Dissociation and dispersion of claudin-3 from the tight junction could be one of the most sensitive indicators of reflux esophagitis in a rat model of the disease. Oguro M, etal., J Gastroenterol. 2011 May;46(5):629-38. doi: 10.1007/s00535-011-0390-1. Epub 2011 Mar 5.
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. Heterogeneity in expression and subcellular localization of claudins 2, 3, 4, and 5 in the rat liver, pancreas, and gut. Rahner C, etal., Gastroenterology 2001 Feb;120(2):411-22.
12. GOA pipeline RGD automated data pipeline
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
15. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:9892664   PMID:10508613   PMID:10562289   PMID:12734665   PMID:15174142   PMID:15489334   PMID:16103090   PMID:16520537   PMID:18036336   PMID:18774778   PMID:19525861   PMID:19765733  
PMID:20655293   PMID:21515662   PMID:22155109   PMID:22275141   PMID:22696678   PMID:23376485   PMID:24889144   PMID:24928064   PMID:25475725   PMID:25649016   PMID:25849148   PMID:27038183  
PMID:27593915   PMID:30734065  


Genomics

Comparative Map Data
Cldn3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81227,345,075 - 27,346,547 (-)NCBIGRCr8
mRatBN7.21221,708,538 - 21,710,010 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1221,708,398 - 21,711,001 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1222,849,399 - 22,850,871 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01223,461,727 - 23,463,199 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01222,529,747 - 22,531,219 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01221,831,341 - 21,832,813 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1221,831,342 - 21,832,813 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01223,849,259 - 23,850,731 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1223,471,431 - 23,472,903 (-)NCBICelera
Cytogenetic Map12q12NCBI
CLDN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38773,768,997 - 73,770,270 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl773,768,997 - 73,770,270 (-)EnsemblGRCh38hg38GRCh38
GRCh37773,183,327 - 73,184,600 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36772,821,263 - 72,822,512 (-)NCBINCBI36Build 36hg18NCBI36
Build 34772,627,978 - 72,629,227NCBI
Celera768,661,514 - 68,662,787 (-)NCBICelera
Cytogenetic Map7q11.23NCBI
HuRef769,065,982 - 69,067,255 (-)NCBIHuRef
CHM1_1773,329,029 - 73,330,302 (-)NCBICHM1_1
T2T-CHM13v2.0774,969,874 - 74,971,147 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2772,516,399 - 72,517,672 (-)NCBI
Cldn3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395135,015,068 - 135,016,330 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5135,015,068 - 135,016,326 (+)EnsemblGRCm39 Ensembl
GRCm385134,986,214 - 134,987,476 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5134,986,214 - 134,987,472 (+)EnsemblGRCm38mm10GRCm38
MGSCv375135,462,084 - 135,463,342 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365135,270,841 - 135,272,099 (+)NCBIMGSCv36mm8
Celera5131,997,044 - 131,998,302 (+)NCBICelera
Cytogenetic Map5G2NCBI
cM Map574.93NCBI
CLDN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2691,123,883 - 91,130,587 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17139,393,595 - 139,395,219 (+)NCBINHGRI_mPanPan1
PanPan1.1780,924,338 - 80,925,761 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl780,924,731 - 80,925,393 (-)Ensemblpanpan1.1panPan2
CLDN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.166,534,229 - 6,535,237 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha68,231,695 - 8,232,703 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.066,349,000 - 6,350,005 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl66,348,948 - 6,350,256 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.166,338,822 - 6,339,825 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.066,286,583 - 6,287,588 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.066,450,257 - 6,451,264 (+)NCBIUU_Cfam_GSD_1.0
Cldn3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344131,083,239 - 131,084,510 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365432,951,086 - 2,953,956 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365432,952,054 - 2,953,313 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLDN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl311,019,073 - 11,020,102 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1311,019,073 - 11,020,102 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2310,715,404 - 10,716,250 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLDN3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1289,301,312 - 9,303,496 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl289,302,446 - 9,303,108 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660707,203,761 - 7,205,348 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cldn3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474014,065,478 - 14,066,137 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474014,065,172 - 14,066,432 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cldn3
8 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:66
Count of miRNA genes:61
Interacting mature miRNAs:62
Transcripts:ENSRNOT00000075280
Prediction methods:Microtar, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)121914436246669029Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
61324Eae5Experimental allergic encephalomyelitis QTL 514nervous system integrity trait (VT:0010566)percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)121961087046669029Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)12960327746669029Rat
61331Eau2Experimental allergic uveoretinitis QTL 20.0005uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)12852542328064601Rat
737822Alc10Alcohol consumption QTL 102.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)121961087040218516Rat
2293684Bmd26Bone mineral density QTL 264.40.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)121587265332974238Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123297788Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12719673046669029Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12134851688Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121107382545055165Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12122591684Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6556449546669029Rat
1300157Rf21Renal function QTL 214.4renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)12931821632103380Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
1298081Cia25Collagen induced arthritis QTL 254.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121961088935682913Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121047413746669029Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
1331755Bp219Blood pressure QTL 2193.041arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121107382528064557Rat
70213Niddm27Non-insulin dependent diabetes mellitus QTL 273.72blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121983578938193007Rat
2306789Ean6Experimental allergic neuritis QTL 64.9nervous system integrity trait (VT:0010566)experimental autoimmune neuritis severity score (CMO:0001528)121961087024139202Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122032881946669029Rat
5684888Pia42Pristane induced arthritis QTL 42joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121961087042828880Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121319815746669029Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101318273646669029Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121281238546669029Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449846669029Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12610757946669029Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12129333307Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121318273646669029Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121235161946669029Rat
1331786Kidm11Kidney mass QTL 113.571kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)121107382524234895Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121047413746669029Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat
631521Pia12Pristane induced arthritis QTL 128.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)122025941723672083Rat
61416Pia4Pristane induced arthritis QTL 48.4joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)121363552330827399Rat
7387292Kidm42Kidney mass QTL 423.030.0004kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)12136247923Rat
61421Cia12Collagen induced arthritis QTL 124.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121363552335682913Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121281238546669029Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
2293086Iddm30Insulin dependent diabetes mellitus QTL 303.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)12844949028302290Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
631543Bp83Blood pressure QTL 835.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121555082638478808Rat

Markers in Region
RH144525  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21221,709,640 - 21,709,809 (+)MAPPERmRatBN7.2
Rnor_6.01221,832,444 - 21,832,612NCBIRnor6.0
Rnor_5.01223,850,362 - 23,850,530UniSTSRnor5.0
Celera1223,472,534 - 23,472,702UniSTS
RH 3.4 Map12344.3UniSTS
RH139762  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21221,708,690 - 21,708,878 (+)MAPPERmRatBN7.2
Rnor_6.01221,831,494 - 21,831,681NCBIRnor6.0
Rnor_5.01223,849,412 - 23,849,599UniSTSRnor5.0
Celera1223,471,584 - 23,471,771UniSTS
RH 3.4 Map12310.6UniSTS
Cldn3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21221,708,910 - 21,709,570 (+)MAPPERmRatBN7.2
Rnor_6.01221,831,714 - 21,832,373NCBIRnor6.0
Rnor_5.01223,849,632 - 23,850,291UniSTSRnor5.0
Celera1223,471,804 - 23,472,463UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 9 18 104 86 88 57 21 57 6 175 56 87 45 59 31

Sequence


Ensembl Acc Id: ENSRNOT00000075280   ⟹   ENSRNOP00000064411
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1221,708,398 - 21,711,001 (-)Ensembl
Rnor_6.0 Ensembl1221,831,342 - 21,832,813 (-)Ensembl
RefSeq Acc Id: NM_031700   ⟹   NP_113888
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81227,345,075 - 27,346,547 (-)NCBI
mRatBN7.21221,708,538 - 21,710,010 (-)NCBI
Rnor_6.01221,831,341 - 21,832,813 (-)NCBI
Rnor_5.01223,849,259 - 23,850,731 (-)NCBI
Celera1223,471,431 - 23,472,903 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_113888 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41760 (Get FASTA)   NCBI Sequence Viewer  
  AAH62411 (Get FASTA)   NCBI Sequence Viewer  
  CAA09727 (Get FASTA)   NCBI Sequence Viewer  
  EDM13403 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000064411.1
GenBank Protein Q63400 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_113888   ⟸   NM_031700
- UniProtKB: Q63400 (UniProtKB/Swiss-Prot),   A6J0G4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000064411   ⟸   ENSRNOT00000075280

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63400-F1-model_v2 AlphaFold Q63400 1-219 view protein structure

Transcriptome

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

Promoters
RGD ID:13698505
Promoter ID:EPDNEW_R9030
Type:initiation region
Name:Cldn3_1
Description:claudin 3
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_6.01221,832,559 - 21,832,619EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:68425 AgrOrtholog
BioCyc Gene G2FUF-19598 BioCyc
Ensembl Genes ENSRNOG00000046007 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000075280.3 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.140.150 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5623891 IMAGE-MGC_LOAD
InterPro Claudin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Claudin3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Claudin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PMP22/EMP/MP20/Claudin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:65130 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72392 IMAGE-MGC_LOAD
NCBI Gene 65130 ENTREZGENE
PANTHER CLAUDIN UniProtKB/TrEMBL
  CLAUDIN-3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12002 UniProtKB/Swiss-Prot
Pfam PMP22_Claudin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cldn3 PhenoGen
PRINTS CLAUDIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CLAUDIN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CLAUDIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000046007 RatGTEx
TIGR TC205531
UniProt A6J0G4 ENTREZGENE, UniProtKB/TrEMBL
  CLD3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Cldn3  claudin 3      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference