CLDN1 (claudin 1) - Rat Genome Database

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Gene: CLDN1 (claudin 1) Canis lupus familiaris
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Symbol: CLDN1
Name: claudin 1
RGD ID: 12182321
Description: ENCODES a protein that exhibits identical protein binding (inferred); structural molecule activity (inferred); virus receptor activity (inferred); INVOLVED IN aging (ortholog); cell-cell junction organization (ortholog); cellular response to butyrate (ortholog); ASSOCIATED WITH atopic dermatitis (ortholog); Breast Neoplasms (ortholog); Burns (ortholog); FOUND IN apical plasma membrane (ortholog); bicellular tight junction (ortholog); cell junction (ortholog); INTERACTS WITH all-trans-retinoic acid
Type: protein-coding
RefSeq Status: MODEL
Also known as: claudin-1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13422,303,058 - 22,319,101 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3422,303,850 - 22,319,033 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3426,396,629 - 26,412,654 (-)NCBI
ROS_Cfam_1.03422,237,734 - 22,253,834 (-)NCBI
UMICH_Zoey_3.13422,258,709 - 22,274,790 (-)NCBI
UNSW_CanFamBas_1.03422,245,945 - 22,262,037 (-)NCBI
UU_Cfam_GSD_1.03422,487,908 - 22,503,999 (-)NCBI
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:19295125   PMID:19690347   PMID:22396724   PMID:22648546   PMID:23762290   PMID:25673908   PMID:27733684  


Genomics

Comparative Map Data
CLDN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13422,303,058 - 22,319,101 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3422,303,850 - 22,319,033 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3426,396,629 - 26,412,654 (-)NCBI
ROS_Cfam_1.03422,237,734 - 22,253,834 (-)NCBI
UMICH_Zoey_3.13422,258,709 - 22,274,790 (-)NCBI
UNSW_CanFamBas_1.03422,245,945 - 22,262,037 (-)NCBI
UU_Cfam_GSD_1.03422,487,908 - 22,503,999 (-)NCBI
CLDN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3190,305,707 - 190,322,446 (-)EnsemblGRCh38hg38GRCh38
GRCh383190,305,707 - 190,322,446 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh373190,023,496 - 190,040,235 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363191,506,187 - 191,522,909 (-)NCBINCBI36hg18NCBI36
Build 343191,506,195 - 191,522,917NCBI
Celera3188,453,968 - 188,470,713 (-)NCBI
Cytogenetic Map3q28NCBI
HuRef3187,423,222 - 187,439,968 (-)NCBIHuRef
CHM1_13189,986,455 - 190,003,201 (-)NCBICHM1_1
Cldn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391626,175,395 - 26,190,589 (-)NCBIGRCm39mm39
GRCm39 Ensembl1626,175,392 - 26,190,591 (-)Ensembl
GRCm381626,356,645 - 26,371,839 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1626,356,642 - 26,371,841 (-)EnsemblGRCm38mm10GRCm38
MGSCv371626,356,737 - 26,371,925 (-)NCBIGRCm37mm9NCBIm37
MGSCv361626,272,000 - 26,287,188 (-)NCBImm8
Celera1626,899,939 - 26,915,115 (-)NCBICelera
Cytogenetic Map16B2NCBI
Cldn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21174,421,569 - 74,436,728 (+)NCBI
Rnor_6.0 Ensembl1177,815,181 - 77,830,416 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01177,815,216 - 77,830,373 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01182,888,890 - 82,904,926 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41176,473,654 - 76,488,809 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11176,531,242 - 76,546,394 (+)NCBI
Celera1173,332,294 - 73,347,451 (+)NCBICelera
Cytogenetic Map11q22NCBI
Cldn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542017,798,974 - 17,815,205 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542017,798,974 - 17,815,049 (+)NCBIChiLan1.0ChiLan1.0
CLDN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13195,882,239 - 195,898,990 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3195,882,239 - 195,899,248 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03187,328,629 - 187,345,360 (-)NCBIMhudiblu_PPA_v0panPan3
Cldn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602114,006,644 - 114,021,281 (+)NCBI
SpeTri2.0NW_00493657898,489 - 113,125 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLDN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13127,712,767 - 127,730,657 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113127,714,857 - 127,730,628 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213136,971,674 - 136,987,446 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLDN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11584,518,464 - 84,533,587 (-)NCBI
ChlSab1.1 Ensembl1584,516,478 - 84,532,969 (-)Ensembl
Vero_WHO_p1.0NW_02366604158,103,316 - 58,119,871 (-)NCBI
Cldn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473066,885,674 - 66,902,345 (+)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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 6 6 6 2 7
Low 5 1 16 6 6 4 5 3 6
Below cutoff 4 2 5 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000047131   ⟹   ENSCAFP00000039082
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3422,303,850 - 22,319,033 (-)Ensembl
RefSeq Acc Id: XM_038445869   ⟹   XP_038301797
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03422,237,734 - 22,253,834 (-)NCBI
RefSeq Acc Id: XM_038520068   ⟹   XP_038375996
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13422,258,709 - 22,274,790 (-)NCBI
RefSeq Acc Id: XM_038583693   ⟹   XP_038439621
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.03422,487,908 - 22,503,999 (-)NCBI
RefSeq Acc Id: XM_038648109   ⟹   XP_038504037
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.03422,245,945 - 22,262,037 (-)NCBI
RefSeq Acc Id: XM_845155   ⟹   XP_850248
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.13422,303,058 - 22,319,101 (-)NCBI
Dog10K_Boxer_Tasha3426,396,629 - 26,412,654 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_038301797 (Get FASTA)   NCBI Sequence Viewer  
  XP_038375996 (Get FASTA)   NCBI Sequence Viewer  
  XP_038439621 (Get FASTA)   NCBI Sequence Viewer  
  XP_038504037 (Get FASTA)   NCBI Sequence Viewer  
  XP_850248 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_850248   ⟸   XM_845155
- UniProtKB: J9P0K9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000039082   ⟸   ENSCAFT00000047131
RefSeq Acc Id: XP_038375996   ⟸   XM_038520068
RefSeq Acc Id: XP_038504037   ⟸   XM_038648109
RefSeq Acc Id: XP_038301797   ⟸   XM_038445869
RefSeq Acc Id: XP_038439621   ⟸   XM_038583693

Promoters
RGD ID:13688920
Promoter ID:EPDNEW_C6988
Type:single initiation site
Name:CLDN1_1
Description:claudin 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.13422,319,290 - 22,319,350EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000029313 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCAFP00000039082 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000047131 UniProtKB/TrEMBL
InterPro Claudin UniProtKB/TrEMBL
  Claudin1 UniProtKB/TrEMBL
  Claudin_CS UniProtKB/TrEMBL
  PMP22/EMP/MP20/Claudin UniProtKB/TrEMBL
KEGG Report cfa:608207 UniProtKB/TrEMBL
NCBI Gene CLDN1 ENTREZGENE
PANTHER PTHR12002 UniProtKB/TrEMBL
  PTHR12002:SF92 UniProtKB/TrEMBL
Pfam PMP22_Claudin UniProtKB/TrEMBL
PRINTS CLAUDIN1 UniProtKB/TrEMBL
PROSITE CLAUDIN UniProtKB/TrEMBL
UniProt J9P0K9 ENTREZGENE, UniProtKB/TrEMBL
  Q700X8_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:39308 ENTREZGENE