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

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

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 5 5 23 22 16 6 6 6 6 32 21 12 14 10

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
Protein Sequences
Protein RefSeqs XP_005621019 (Get FASTA)   NCBI Sequence Viewer  
  XP_038333773 (Get FASTA)   NCBI Sequence Viewer  
  XP_038395023 (Get FASTA)   NCBI Sequence Viewer  
  XP_038459113 (Get FASTA)   NCBI Sequence Viewer  
  XP_038523818 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein A0A8C0N7E5 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCAFP00805000382
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
  ENSCAFG00805000342 UniProtKB/Swiss-Prot
Ensembl Transcript ENSCAFT00805000525 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.140.150 UniProtKB/Swiss-Prot
InterPro Claudin UniProtKB/Swiss-Prot
  Claudin4 UniProtKB/Swiss-Prot
  Claudin_CS UniProtKB/Swiss-Prot
  PMP22/EMP/MP20/Claudin UniProtKB/Swiss-Prot
KEGG Report cfa:100856416 UniProtKB/Swiss-Prot
NCBI Gene CLDN4 ENTREZGENE
PANTHER CLAUDIN UniProtKB/Swiss-Prot
Pfam PMP22_Claudin UniProtKB/Swiss-Prot
PRINTS CLAUDIN UniProtKB/Swiss-Prot
  CLAUDIN4 UniProtKB/Swiss-Prot
PROSITE CLAUDIN UniProtKB/Swiss-Prot
UniProt A0A8C0KEA8 ENTREZGENE
  A0A8C0N7E5 ENTREZGENE
  A0A8P0NEI2 ENTREZGENE
  CLD4_CANLF UniProtKB/Swiss-Prot
UniProt Secondary A0A8P0NEI2 UniProtKB/Swiss-Prot
VGNC ID VGNC:39321 ENTREZGENE