CLDN4 (claudin 4) - Rat Genome Database

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Gene: CLDN4 (claudin 4) Canis lupus familiaris
Analyze
Symbol: CLDN4
Name: claudin 4
RGD ID: 12377761
Description: ENCODES a protein that exhibits chloride channel activity (inferred); structural molecule activity (inferred); INVOLVED IN circadian rhythm (ortholog); establishment of skin barrier (ortholog); female pregnancy (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); autistic disorder (ortholog); Breast Neoplasms (ortholog); FOUND IN apical plasma membrane (ortholog); apicolateral plasma membrane (ortholog); basal plasma membrane (ortholog); INTERACTS WITH all-trans-retinoic acid; anthra[1,9-cd]pyrazol-6(2H)-one; D-mannitol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: claudin-4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.166,492,706 - 6,506,750 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl66,493,513 - 6,494,145 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha68,190,345 - 8,192,020 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.066,307,743 - 6,309,418 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.166,297,469 - 6,299,144 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.066,245,334 - 6,247,009 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.066,409,111 - 6,410,786 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:16949040   PMID:19295125   PMID:19409881   PMID:19897451   PMID:21751143   PMID:21938738   PMID:22301074   PMID:23816505   PMID:24909426   PMID:25588839   PMID:30032202  


Genomics

Comparative Map Data
CLDN4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.166,492,706 - 6,506,750 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl66,493,513 - 6,494,145 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha68,190,345 - 8,192,020 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.066,307,743 - 6,309,418 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.166,297,469 - 6,299,144 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.066,245,334 - 6,247,009 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.066,409,111 - 6,410,786 (-)NCBIUU_Cfam_GSD_1.0
CLDN4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38773,830,996 - 73,832,690 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl773,799,542 - 73,832,690 (+)EnsemblGRCh38hg38GRCh38
GRCh37773,245,326 - 73,247,020 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36772,883,129 - 72,884,951 (+)NCBINCBI36Build 36hg18NCBI36
Build 34772,689,843 - 72,691,665NCBI
Celera768,723,847 - 68,725,669 (+)NCBICelera
Cytogenetic Map7q11.23NCBI
HuRef769,128,478 - 69,130,300 (+)NCBIHuRef
CHM1_1773,390,573 - 73,392,395 (+)NCBICHM1_1
T2T-CHM13v2.0775,031,891 - 75,033,585 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2772,578,265 - 72,580,087 (+)NCBI
Cldn4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395134,973,977 - 134,975,788 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5134,973,973 - 134,975,788 (-)EnsemblGRCm39 Ensembl
GRCm385134,945,123 - 134,946,934 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5134,945,119 - 134,946,934 (-)EnsemblGRCm38mm10GRCm38
MGSCv375135,420,993 - 135,422,804 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365135,229,754 - 135,231,542 (-)NCBIMGSCv36mm8
Celera5131,955,947 - 131,957,758 (-)NCBICelera
Cytogenetic Map5G2NCBI
cM Map574.9NCBI
Cldn4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81227,388,160 - 27,389,958 (+)NCBIGRCr8
mRatBN7.21221,751,638 - 21,753,436 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1221,751,331 - 21,753,436 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1222,892,308 - 22,894,101 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01223,504,632 - 23,506,425 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01222,572,828 - 22,574,626 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01224,761,210 - 24,763,008 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1224,761,210 - 24,763,005 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01226,761,480 - 26,763,278 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41222,816,134 - 22,817,932 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11222,686,996 - 22,688,792 (+)NCBI
Celera1223,512,667 - 23,514,465 (+)NCBICelera
Cytogenetic Map12q12NCBI
Cldn4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545613,962,497 - 13,963,126 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545613,961,743 - 13,965,498 (-)NCBIChiLan1.0ChiLan1.0
CLDN4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2691,069,664 - 91,070,822 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17139,333,445 - 139,338,058 (-)NCBINHGRI_mPanPan1
PanPan1.1780,981,237 - 80,985,320 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl780,983,832 - 80,984,461 (+)Ensemblpanpan1.1panPan2
Cldn4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344131,050,004 - 131,051,960 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365432,984,996 - 2,985,625 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365432,984,797 - 2,986,563 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLDN4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl311,039,706 - 11,053,925 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1311,039,711 - 11,053,930 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2310,776,896 - 10,788,804 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLDN4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1289,242,054 - 9,244,972 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl289,242,909 - 9,243,538 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660707,261,229 - 7,265,337 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cldn4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474014,033,848 - 14,035,854 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CLDN4
103 total Variants

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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 1 3 8 3 1 3 6 10 6
Low 4 2 14 3 5 3 6
Below cutoff 5 6 8

Sequence


Ensembl Acc Id: ENSCAFT00000019888   ⟹   ENSCAFP00000018445
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl66,493,513 - 6,494,145 (-)Ensembl
RefSeq Acc Id: XM_005620962   ⟹   XP_005621019
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.166,492,706 - 6,506,750 (-)NCBI
Dog10K_Boxer_Tasha68,190,345 - 8,192,020 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038477845   ⟹   XP_038333773
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.166,297,469 - 6,299,144 (-)NCBI
RefSeq Acc Id: XM_038539095   ⟹   XP_038395023
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.066,409,111 - 6,410,786 (-)NCBI
RefSeq Acc Id: XM_038603185   ⟹   XP_038459113
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.066,245,334 - 6,247,009 (-)NCBI
RefSeq Acc Id: XM_038667890   ⟹   XP_038523818
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.066,307,743 - 6,309,418 (-)NCBI
RefSeq Acc Id: XP_005621019   ⟸   XM_005620962
- UniProtKB: A0A8C0KEA8 (UniProtKB/TrEMBL),   A0A8C0N7E5 (UniProtKB/TrEMBL),   A0A8P0NEI2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCAFP00000018445   ⟸   ENSCAFT00000019888
RefSeq Acc Id: XP_038333773   ⟸   XM_038477845
RefSeq Acc Id: XP_038459113   ⟸   XM_038603185
RefSeq Acc Id: XP_038523818   ⟸   XM_038667890
RefSeq Acc Id: XP_038395023   ⟸   XM_038539095
- UniProtKB: A0A8C0KEA8 (UniProtKB/TrEMBL),   A0A8C0N7E5 (UniProtKB/TrEMBL),   A0A8P0NEI2 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000012523 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030012820 UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000019888.2 UniProtKB/TrEMBL
  ENSCAFT00030023699.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.140.150 UniProtKB/TrEMBL
InterPro Claudin UniProtKB/TrEMBL
  Claudin4 UniProtKB/TrEMBL
  Claudin_CS UniProtKB/TrEMBL
  PMP22/EMP/MP20/Claudin UniProtKB/TrEMBL
KEGG Report cfa:100856416 UniProtKB/TrEMBL
NCBI Gene CLDN4 ENTREZGENE
PANTHER CLAUDIN-4 UniProtKB/TrEMBL
  PTHR12002 UniProtKB/TrEMBL
Pfam PMP22_Claudin UniProtKB/TrEMBL
PRINTS CLAUDIN UniProtKB/TrEMBL
  CLAUDIN4 UniProtKB/TrEMBL
PROSITE CLAUDIN UniProtKB/TrEMBL
UniProt A0A8C0KEA8 ENTREZGENE
  A0A8C0N7E5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0NEI2 ENTREZGENE
UniProt Secondary A0A8P0NEI2 UniProtKB/TrEMBL
VGNC ID VGNC:39321 ENTREZGENE