CLDN4 (claudin 4) - Rat Genome Database
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Gene: CLDN4 (claudin 4) Sus scrofa
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Symbol: CLDN4
Name: claudin 4
RGD ID: 13853488
Description: ENCODES a protein that exhibits chloride channel activity (inferred); structural molecule activity (inferred); INVOLVED IN circadian rhythm (ortholog); female pregnancy (ortholog); response to progesterone (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); autistic disorder (ortholog); Breast Neoplasms (ortholog); FOUND IN apical plasma membrane (ortholog); basal plasma membrane (ortholog); cell-cell junction (ortholog); INTERACTS WITH amino acid; deoxynivalenol; diquat
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: claudin-4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
amino acid  (EXP)
deoxynivalenol  (EXP)
diquat  (EXP)
ethanol  (EXP)

References
Additional References at PubMed
PMID:20033366   PMID:25948883   PMID:27966776  


Genomics

Comparative Map Data
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
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl773,799,542 - 73,832,693 (+)EnsemblGRCh38hg38GRCh38
GRCh38773,830,996 - 73,832,690 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37773,245,193 - 73,247,015 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36772,883,129 - 72,884,951 (+)NCBINCBI36hg18NCBI36
Build 34772,689,843 - 72,691,665NCBI
Celera768,723,847 - 68,725,669 (+)NCBI
Cytogenetic Map7q11.23NCBI
HuRef769,128,478 - 69,130,300 (+)NCBIHuRef
CHM1_1773,390,573 - 73,392,403 (+)NCBICHM1_1
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 (-)NCBIGRCm39mm39
GRCm385134,945,123 - 134,946,934 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5134,945,119 - 134,946,934 (-)EnsemblGRCm38mm10GRCm38
MGSCv375135,420,993 - 135,422,804 (-)NCBIGRCm37mm9NCBIm37
MGSCv365135,229,754 - 135,231,542 (-)NCBImm8
Celera5131,955,947 - 131,957,758 (-)NCBICelera
Cytogenetic Map5G2NCBI
cM Map574.9NCBI
Cldn4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
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 (+)NCBIRGSC3.4rn4RGSC3.4
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
PanPan1.1780,981,237 - 80,985,320 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl780,983,832 - 80,984,461 (+)Ensemblpanpan1.1panPan2
CLDN4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl66,493,513 - 6,494,145 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.166,492,706 - 6,506,750 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cldn4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365432,984,797 - 2,986,563 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLDN4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1289,242,054 - 9,244,972 (-)NCBI
ChlSab1.1 Ensembl289,242,909 - 9,243,538 (-)Ensembl
Cldn4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474014,033,848 - 14,035,854 (-)NCBI


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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 6 1 3 1
Low 2 2 3 2 4 2
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000033656   ⟹   ENSSSCP00000030678
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl311,039,706 - 11,053,925 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000088870   ⟹   ENSSSCP00000074155
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl311,048,209 - 11,053,925 (+)Ensembl
RefSeq Acc Id: NM_001161637   ⟹   NP_001155109
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1311,052,281 - 11,053,319 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005661969   ⟹   XP_005662026
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1311,050,173 - 11,053,930 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013995522   ⟹   XP_013850976
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1311,040,121 - 11,053,930 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021085910   ⟹   XP_020941569
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1311,039,711 - 11,053,930 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001155109 (Get FASTA)   NCBI Sequence Viewer  
  XP_005662026 (Get FASTA)   NCBI Sequence Viewer  
  XP_013850976 (Get FASTA)   NCBI Sequence Viewer  
  XP_020941569 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ACP43538 (Get FASTA)   NCBI Sequence Viewer  
  BAE45123 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_020941569   ⟸   XM_021085910
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013850976   ⟸   XM_013995522
- Peptide Label: isoform X1
- UniProtKB: C3VML0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005662026   ⟸   XM_005661969
- Peptide Label: isoform X1
- UniProtKB: C3VML0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001155109   ⟸   NM_001161637
- UniProtKB: C3VML0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000074155   ⟸   ENSSSCT00000088870
RefSeq Acc Id: ENSSSCP00000030678   ⟸   ENSSSCT00000033656


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000007718 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070018620 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000030678 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000074155 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00070030693 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000033656 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000088870 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00070036716 UniProtKB/TrEMBL
InterPro Claudin UniProtKB/TrEMBL
  Claudin4 UniProtKB/TrEMBL
  Claudin_CS UniProtKB/TrEMBL
  PMP22/EMP/MP20/Claudin UniProtKB/TrEMBL
KEGG Report ssc:733578 UniProtKB/TrEMBL
NCBI Gene CLDN4 ENTREZGENE
PANTHER PTHR12002 UniProtKB/TrEMBL
Pfam PMP22_Claudin UniProtKB/TrEMBL
PRINTS CLAUDIN4 UniProtKB/TrEMBL
PROSITE CLAUDIN UniProtKB/TrEMBL
UniProt A0A4X1UKW6_PIG UniProtKB/TrEMBL
  C3VML0 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:100383 ENTREZGENE