Cldn14 (claudin 14) - Rat Genome Database

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Gene: Cldn14 (claudin 14) Rattus norvegicus
Analyze
Symbol: Cldn14
Name: claudin 14
RGD ID: 1309165
Description: Predicted to enable structural molecule activity. Predicted to be involved in bicellular tight junction assembly and cell adhesion. Predicted to be active in bicellular tight junction and plasma membrane. Human ortholog(s) of this gene implicated in autosomal recessive nonsyndromic deafness 29. Orthologous to human CLDN14 (claudin 14); PARTICIPATES IN hepatitis C pathway; INTERACTS WITH 6-propyl-2-thiouracil; acetamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: claudin-14; LOC304073; MGC109472
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21133,232,281 - 33,329,440 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1133,232,220 - 33,329,171 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1141,886,839 - 41,896,662 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01134,558,195 - 34,568,023 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01133,708,164 - 33,718,037 (-)NCBIRnor_WKY
Rnor_6.01134,132,581 - 34,142,813 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1134,132,581 - 34,142,753 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01137,721,801 - 37,732,031 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41134,142,138 - 34,151,928 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11134,198,380 - 34,208,171 (-)NCBI
Celera1135,202,958 - 35,212,543 (+)NCBICelera
Cytogenetic Map11q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Chronic metabolic acidosis upregulated claudin mRNA expression in the duodenal enterocytes of female rats. Charoenphandhu N, etal., Life Sci. 2007 Mar 2;.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Comprehensive gene review and curation RGD comprehensive gene curation
11. 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.
12. Mutations in the gene encoding tight junction claudin-14 cause autosomal recessive deafness DFNB29. Wilcox ER, etal., Cell. 2001 Jan 12;104(1):165-72.
Additional References at PubMed
PMID:16780588   PMID:17130295   PMID:18036336   PMID:33283646   PMID:33903003  


Genomics

Comparative Map Data
Cldn14
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21133,232,281 - 33,329,440 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1133,232,220 - 33,329,171 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1141,886,839 - 41,896,662 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01134,558,195 - 34,568,023 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01133,708,164 - 33,718,037 (-)NCBIRnor_WKY
Rnor_6.01134,132,581 - 34,142,813 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1134,132,581 - 34,142,753 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01137,721,801 - 37,732,031 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41134,142,138 - 34,151,928 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11134,198,380 - 34,208,171 (-)NCBI
Celera1135,202,958 - 35,212,543 (+)NCBICelera
Cytogenetic Map11q11NCBI
CLDN14
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382136,460,621 - 36,576,569 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2136,460,621 - 36,576,569 (-)EnsemblGRCh38hg38GRCh38
GRCh372137,832,919 - 37,948,867 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362136,754,789 - 36,774,258 (-)NCBINCBI36Build 36hg18NCBI36
Build 342136,754,788 - 36,774,258NCBI
Celera2123,031,290 - 23,147,246 (-)NCBICelera
Cytogenetic Map21q22.13NCBI
HuRef2123,308,758 - 23,424,553 (-)NCBIHuRef
CHM1_12137,394,668 - 37,510,188 (-)NCBICHM1_1
T2T-CHM13v2.02134,843,222 - 34,958,721 (-)NCBIT2T-CHM13v2.0
Cldn14
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391693,715,919 - 93,809,733 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1693,715,919 - 93,809,696 (-)EnsemblGRCm39 Ensembl
GRCm381693,919,031 - 94,008,837 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1693,919,031 - 94,008,837 (-)EnsemblGRCm38mm10GRCm38
MGSCv371693,919,276 - 94,009,082 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361693,807,573 - 93,897,377 (-)NCBIMGSCv36mm8
Celera1695,007,775 - 95,094,719 (-)NCBICelera
Cytogenetic Map16C4NCBI
Cldn14
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540735,641,560 - 35,728,105 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540735,641,560 - 35,728,105 (-)NCBIChiLan1.0ChiLan1.0
CLDN14
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12136,186,950 - 36,206,412 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2136,187,306 - 36,188,025 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02122,830,770 - 22,946,594 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CLDN14
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13131,677,410 - 31,725,794 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3131,677,733 - 31,678,446 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3130,738,456 - 30,787,847 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03130,979,723 - 31,029,111 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3130,980,486 - 30,981,199 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13130,847,849 - 30,897,442 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03130,860,674 - 30,910,421 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03131,350,742 - 31,400,174 (-)NCBIUU_Cfam_GSD_1.0
Cldn14
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497131,240,241 - 31,336,678 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365006,207,856 - 6,227,582 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLDN14
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13200,128,477 - 200,145,525 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113200,121,796 - 200,201,712 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213210,156,559 - 210,157,513 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLDN14
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1280,457,907 - 80,535,855 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl280,458,270 - 80,458,989 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660548,299,812 - 8,377,996 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cldn14
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474527,058,911 - 27,074,282 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474527,058,441 - 27,074,288 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cldn14
787 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:178
Count of miRNA genes:136
Interacting mature miRNAs:163
Transcripts:ENSRNOT00000002297
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11135331169Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111647204744285911Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)112952841860324829Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat

Markers in Region
D11Got27  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,231,846 - 33,232,121 (+)MAPPERmRatBN7.2
Rnor_6.01134,132,151 - 34,132,421NCBIRnor6.0
Rnor_5.01137,721,371 - 37,721,641UniSTSRnor5.0
RGSC_v3.41134,141,707 - 34,141,978RGDRGSC3.4
RGSC_v3.41134,141,708 - 34,141,978UniSTSRGSC3.4
RGSC_v3.11134,197,950 - 34,198,221RGD
Celera1135,212,703 - 35,212,962UniSTS
RH 2.0 Map11400.8RGD
Cytogenetic Map11q11UniSTS
Cldn14  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,232,945 - 33,233,190 (+)MAPPERmRatBN7.2
Rnor_6.01134,133,246 - 34,133,490NCBIRnor6.0
Rnor_5.01137,722,466 - 37,722,710UniSTSRnor5.0
RGSC_v3.41134,142,803 - 34,143,047UniSTSRGSC3.4
Celera1135,211,634 - 35,211,878UniSTS
Cytogenetic Map11q11UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 17 17 17
Low 20 20 20 10 12
Below cutoff 8 2 1 1 1 14 13 10 3 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002297   ⟹   ENSRNOP00000002297
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1133,232,220 - 33,242,135 (-)Ensembl
Rnor_6.0 Ensembl1134,132,581 - 34,142,753 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102693   ⟹   ENSRNOP00000095342
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1133,232,309 - 33,329,171 (-)Ensembl
RefSeq Acc Id: NM_001013429   ⟹   NP_001013447
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,232,281 - 33,242,079 (-)NCBI
Rnor_6.01134,132,581 - 34,142,753 (-)NCBI
Rnor_5.01137,721,801 - 37,732,031 (-)NCBI
RGSC_v3.41134,142,138 - 34,151,928 (-)RGD
Celera1135,202,958 - 35,212,543 (+)RGD
Sequence:
RefSeq Acc Id: XM_006248058   ⟹   XP_006248120
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,232,283 - 33,242,028 (-)NCBI
Rnor_6.01134,132,583 - 34,142,703 (-)NCBI
Rnor_5.01137,721,801 - 37,732,031 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248059   ⟹   XP_006248121
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,232,283 - 33,242,240 (-)NCBI
Rnor_6.01134,132,583 - 34,142,813 (-)NCBI
Rnor_5.01137,721,801 - 37,732,031 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039088410   ⟹   XP_038944338
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21133,232,283 - 33,329,440 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001013447   ⟸   NM_001013429
- UniProtKB: Q5BJQ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248121   ⟸   XM_006248059
- Peptide Label: isoform X1
- UniProtKB: Q5BJQ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248120   ⟸   XM_006248058
- Peptide Label: isoform X1
- UniProtKB: Q5BJQ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002297   ⟸   ENSRNOT00000002297
RefSeq Acc Id: XP_038944338   ⟸   XM_039088410
- Peptide Label: isoform X1
- UniProtKB: Q5BJQ1 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000095342   ⟸   ENSRNOT00000102693

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5BJQ1-F1-model_v2 AlphaFold Q5BJQ1 1-239 view protein structure

Transcriptome

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

Promoters
RGD ID:13698076
Promoter ID:EPDNEW_R8601
Type:single initiation site
Name:Cldn14_2
Description:claudin 14
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R8602  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01134,142,508 - 34,142,568EPDNEW
RGD ID:13698077
Promoter ID:EPDNEW_R8602
Type:initiation region
Name:Cldn14_1
Description:claudin 14
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R8601  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01134,142,804 - 34,142,864EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309165 AgrOrtholog
BioCyc Gene G2FUF-21783 BioCyc
Ensembl Genes ENSRNOG00000001691 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002297 ENTREZGENE
  ENSRNOP00000002297.2 UniProtKB/TrEMBL
  ENSRNOP00000095342 ENTREZGENE
  ENSRNOP00000095342.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002297 ENTREZGENE
  ENSRNOT00000002297.4 UniProtKB/TrEMBL
  ENSRNOT00000102693 ENTREZGENE
  ENSRNOT00000102693.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7321417 IMAGE-MGC_LOAD
InterPro Claudin UniProtKB/TrEMBL
  Claudin14 UniProtKB/TrEMBL
  Claudin_CS UniProtKB/TrEMBL
  PMP22/EMP/MP20/Claudin UniProtKB/TrEMBL
KEGG Report rno:304073 UniProtKB/TrEMBL
MGC_CLONE MGC:109472 IMAGE-MGC_LOAD
NCBI Gene 304073 ENTREZGENE
PANTHER Claudin UniProtKB/TrEMBL
  PTHR12002:SF99 UniProtKB/TrEMBL
Pfam PMP22_Claudin UniProtKB/TrEMBL
PhenoGen Cldn14 PhenoGen
PROSITE CLAUDIN UniProtKB/TrEMBL
UniProt Q5BJQ1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Cldn14  claudin 14  Cldn14_predicted  claudin 14 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Cldn14_predicted  claudin 14 (predicted)      Symbol and Name status set to approved 70820 APPROVED