CLDN6 (claudin 6) - Rat Genome Database

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Gene: CLDN6 (claudin 6) Canis lupus familiaris
Analyze
Symbol: CLDN6
Name: claudin 6
RGD ID: 12420544
Description: ENCODES a protein that exhibits structural molecule activity (inferred); virus receptor activity (inferred); INVOLVED IN cell-cell junction organization (ortholog); FOUND IN bicellular tight junction (ortholog); plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: claudin-6
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
CanFam3.1638,168,793 - 38,171,827 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl638,170,608 - 38,171,273 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha639,409,000 - 39,412,350 (+)NCBI
ROS_Cfam_1.0638,479,077 - 38,482,417 (+)NCBI
UMICH_Zoey_3.1638,164,870 - 38,168,202 (+)NCBI
UNSW_CanFamBas_1.0638,137,368 - 38,140,690 (+)NCBI
UU_Cfam_GSD_1.0638,613,145 - 38,616,477 (+)NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:18784328  


Genomics

Comparative Map Data
CLDN6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1638,168,793 - 38,171,827 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl638,170,608 - 38,171,273 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha639,409,000 - 39,412,350 (+)NCBI
ROS_Cfam_1.0638,479,077 - 38,482,417 (+)NCBI
UMICH_Zoey_3.1638,164,870 - 38,168,202 (+)NCBI
UNSW_CanFamBas_1.0638,137,368 - 38,140,690 (+)NCBI
UU_Cfam_GSD_1.0638,613,145 - 38,616,477 (+)NCBI
CLDN6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl163,014,712 - 3,020,071 (-)EnsemblGRCh38hg38GRCh38
GRCh38163,014,712 - 3,018,183 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37163,064,713 - 3,068,184 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36163,004,714 - 3,008,189 (-)NCBINCBI36hg18NCBI36
Build 34163,004,714 - 3,008,163NCBI
Celera163,270,273 - 3,273,747 (-)NCBI
Cytogenetic Map16p13.3NCBI
HuRef163,036,562 - 3,040,036 (-)NCBIHuRef
CHM1_1163,064,587 - 3,068,062 (-)NCBICHM1_1
Cldn6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391723,898,321 - 23,901,420 (+)NCBIGRCm39mm39
GRCm39 Ensembl1723,898,223 - 23,901,420 (+)Ensembl
GRCm381723,679,348 - 23,682,446 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1723,679,249 - 23,682,446 (+)EnsemblGRCm38mm10GRCm38
MGSCv371723,816,332 - 23,819,407 (+)NCBIGRCm37mm9NCBIm37
MGSCv361723,406,987 - 23,410,062 (+)NCBImm8
Celera1724,185,577 - 24,188,657 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
Cldn6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21012,710,302 - 12,713,987 (+)NCBI
Rnor_6.0 Ensembl1013,000,090 - 13,002,862 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01012,999,256 - 13,002,860 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01012,822,308 - 12,825,905 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41012,944,503 - 12,947,271 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11012,945,821 - 12,946,518 (+)NCBI
Celera1012,406,544 - 12,409,312 (+)NCBICelera
Cytogenetic Map10q12NCBI
Cldn6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544214,323,193 - 14,326,311 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544214,323,193 - 14,326,311 (+)NCBIChiLan1.0ChiLan1.0
CLDN6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1163,128,951 - 3,132,503 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0161,956,556 - 1,960,177 (-)NCBIMhudiblu_PPA_v0panPan3
Cldn6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344105,554,839 - 105,557,401 (-)NCBI
SpeTri2.0NW_0049366941,153,189 - 1,154,012 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLDN6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl339,167,853 - 39,172,629 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1339,168,506 - 39,172,631 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2340,527,340 - 40,531,326 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLDN6
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.152,758,086 - 2,761,996 (-)NCBI
ChlSab1.1 Ensembl52,758,702 - 2,759,364 (-)Ensembl
Vero_WHO_p1.0NW_02366606828,073,450 - 28,074,745 (+)NCBI
Cldn6
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624824760,251 - 764,101 (-)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
Low 1 6 1 12 1
Below cutoff 3 2 8 2 5 2 4 2 7 6 4

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_022420171 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038479371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038479372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038540633 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038540634 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038549034 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038604744 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038604745 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038669428 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038669429 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_547168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000090 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000030724   ⟹   ENSCAFP00000028558
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl638,170,608 - 38,171,273 (+)Ensembl
RefSeq Acc Id: XM_022420171   ⟹   XP_022275879
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1638,169,213 - 38,171,827 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038479371   ⟹   XP_038335299
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1638,165,025 - 38,168,202 (+)NCBI
RefSeq Acc Id: XM_038479372   ⟹   XP_038335300
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1638,164,870 - 38,168,202 (+)NCBI
RefSeq Acc Id: XM_038540633   ⟹   XP_038396561
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0638,613,300 - 38,616,477 (+)NCBI
RefSeq Acc Id: XM_038540634   ⟹   XP_038396562
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0638,613,145 - 38,616,477 (+)NCBI
RefSeq Acc Id: XM_038549034   ⟹   XP_038404962
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha639,409,000 - 39,412,350 (+)NCBI
RefSeq Acc Id: XM_038604744   ⟹   XP_038460672
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0638,137,523 - 38,140,690 (+)NCBI
RefSeq Acc Id: XM_038604745   ⟹   XP_038460673
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0638,137,368 - 38,140,690 (+)NCBI
RefSeq Acc Id: XM_038669428   ⟹   XP_038525356
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0638,479,232 - 38,482,417 (+)NCBI
RefSeq Acc Id: XM_038669429   ⟹   XP_038525357
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0638,479,077 - 38,482,417 (+)NCBI
RefSeq Acc Id: XM_547168   ⟹   XP_547168
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1638,168,793 - 38,171,827 (+)NCBI
Dog10K_Boxer_Tasha639,409,172 - 39,412,350 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_547168   ⟸   XM_547168
- UniProtKB: L7N0I6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_022275879   ⟸   XM_022420171
- Sequence:
RefSeq Acc Id: ENSCAFP00000028558   ⟸   ENSCAFT00000030724
RefSeq Acc Id: XP_038335300   ⟸   XM_038479372
RefSeq Acc Id: XP_038335299   ⟸   XM_038479371
RefSeq Acc Id: XP_038460673   ⟸   XM_038604745
RefSeq Acc Id: XP_038460672   ⟸   XM_038604744
RefSeq Acc Id: XP_038525357   ⟸   XM_038669429
RefSeq Acc Id: XP_038525356   ⟸   XM_038669428
RefSeq Acc Id: XP_038404962   ⟸   XM_038549034
RefSeq Acc Id: XP_038396562   ⟸   XM_038540634
RefSeq Acc Id: XP_038396561   ⟸   XM_038540633


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000019337 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCAFP00000028558 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000030724 UniProtKB/TrEMBL
InterPro Claudin UniProtKB/TrEMBL
  Claudin6 UniProtKB/TrEMBL
  Claudin_CS UniProtKB/TrEMBL
  PMP22/EMP/MP20/Claudin UniProtKB/TrEMBL
NCBI Gene CLDN6 ENTREZGENE
PANTHER PTHR12002 UniProtKB/TrEMBL
  PTHR12002:SF41 UniProtKB/TrEMBL
Pfam PMP22_Claudin UniProtKB/TrEMBL
PRINTS CLAUDIN6 UniProtKB/TrEMBL
PROSITE CLAUDIN UniProtKB/TrEMBL
UniProt L7N0I6 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:39322 ENTREZGENE