Cldn17 (claudin 17) - Rat Genome Database

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Gene: Cldn17 (claudin 17) Rattus norvegicus
Analyze
Symbol: Cldn17
Name: claudin 17
RGD ID: 1307462
Description: Predicted to enable structural molecule activity. Predicted to be involved in bicellular tight junction assembly and cell adhesion. Predicted to be active in bicellular tight junction and plasma membrane. Orthologous to human CLDN17 (claudin 17); PARTICIPATES IN hepatitis C pathway; INTERACTS WITH 3-chloropropane-1,2-diol; bisphenol A; cadmium dichloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: claudin-17; LOC304125
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81141,313,675 - 41,314,851 (-)NCBIGRCr8
mRatBN7.21127,827,454 - 27,828,630 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1127,827,454 - 27,828,630 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1136,522,079 - 36,523,255 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01129,222,312 - 29,223,488 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01128,386,024 - 28,387,200 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01128,477,184 - 28,478,360 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1128,477,184 - 28,478,360 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01132,096,864 - 32,098,040 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41128,370,004 - 28,371,180 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11128,370,279 - 28,371,054 (-)NCBI
Celera1127,543,124 - 27,544,300 (-)NCBICelera
Cytogenetic Map11q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16780588   PMID:18036336   PMID:20375010  


Genomics

Comparative Map Data
Cldn17
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81141,313,675 - 41,314,851 (-)NCBIGRCr8
mRatBN7.21127,827,454 - 27,828,630 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1127,827,454 - 27,828,630 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1136,522,079 - 36,523,255 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01129,222,312 - 29,223,488 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01128,386,024 - 28,387,200 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01128,477,184 - 28,478,360 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1128,477,184 - 28,478,360 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01132,096,864 - 32,098,040 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41128,370,004 - 28,371,180 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11128,370,279 - 28,371,054 (-)NCBI
Celera1127,543,124 - 27,544,300 (-)NCBICelera
Cytogenetic Map11q11NCBI
CLDN17
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382130,165,565 - 30,166,805 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2130,165,565 - 30,166,805 (-)EnsemblGRCh38hg38GRCh38
GRCh372131,537,883 - 31,539,123 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362130,460,132 - 30,460,806 (-)NCBINCBI36Build 36hg18NCBI36
Build 342130,460,131 - 30,460,806NCBI
Celera2116,721,375 - 16,722,105 (-)NCBICelera
Cytogenetic Map21q21.3NCBI
HuRef2116,947,252 - 16,947,982 (-)NCBIHuRef
CHM1_12131,099,771 - 31,100,501 (-)NCBICHM1_1
T2T-CHM13v2.02128,531,493 - 28,532,733 (-)NCBIT2T-CHM13v2.0
Cldn17
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391688,302,695 - 88,303,866 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1688,302,695 - 88,303,866 (-)EnsemblGRCm39 Ensembl
GRCm381688,505,807 - 88,506,978 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1688,505,807 - 88,506,978 (-)EnsemblGRCm38mm10GRCm38
MGSCv371688,506,052 - 88,507,223 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361688,394,666 - 88,395,837 (-)NCBIMGSCv36mm8
Celera1688,709,921 - 88,711,092 (-)NCBICelera
Cytogenetic Map16C3.3NCBI
cM Map1651.12NCBI
Cldn17
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540729,519,768 - 29,520,442 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540729,519,400 - 29,520,625 (-)NCBIChiLan1.0ChiLan1.0
CLDN17
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22226,335,623 - 26,336,856 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12121,190,250 - 21,191,483 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02116,585,223 - 16,586,444 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12129,968,851 - 29,969,569 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2129,968,865 - 29,969,539 (-)Ensemblpanpan1.1panPan2
CLDN17
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13125,040,700 - 25,042,210 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3125,041,093 - 25,041,767 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3125,032,902 - 25,035,238 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03125,154,366 - 25,156,702 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3125,155,584 - 25,156,258 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13125,104,404 - 25,106,740 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03125,113,914 - 25,116,250 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03125,577,995 - 25,580,331 (-)NCBIUU_Cfam_GSD_1.0
Cldn17
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497125,514,613 - 25,516,607 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650011,951,401 - 11,952,075 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650011,951,381 - 11,952,076 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLDN17
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13193,516,598 - 193,517,462 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113193,516,598 - 193,517,462 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213204,119,138 - 204,120,002 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLDN17
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1262,067,677 - 62,071,538 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl262,068,702 - 62,069,376 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660714,640,676 - 4,641,888 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cldn17
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474518,229,813 - 18,230,487 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474518,229,509 - 18,230,650 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cldn17
9 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:92
Count of miRNA genes:84
Interacting mature miRNAs:87
Transcripts:ENSRNOT00000032663
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11135331169Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111647204744285911Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat

Markers in Region
RH134682  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21127,827,616 - 27,827,796 (+)MAPPERmRatBN7.2
Rnor_6.01128,477,347 - 28,477,526NCBIRnor6.0
Rnor_5.01132,097,027 - 32,097,206UniSTSRnor5.0
RGSC_v3.41128,370,167 - 28,370,346UniSTSRGSC3.4
Celera1127,543,287 - 27,543,466UniSTS
RH 3.4 Map11150.5UniSTS
Cytogenetic Map11q11UniSTS


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 endocrine system exocrine system hemolymphoid system hepatobiliary system nervous system renal system reproductive system respiratory system
High
Medium
Low 1 30 6 7
Below cutoff 1 6 3 3 3 5 5 18 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000032663   ⟹   ENSRNOP00000038862
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1127,827,454 - 27,828,630 (-)Ensembl
Rnor_6.0 Ensembl1128,477,184 - 28,478,360 (-)Ensembl
RefSeq Acc Id: NM_001107112   ⟹   NP_001100582
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81141,313,675 - 41,314,851 (-)NCBI
mRatBN7.21127,827,454 - 27,828,630 (-)NCBI
Rnor_6.01128,477,184 - 28,478,360 (-)NCBI
Rnor_5.01132,096,864 - 32,098,040 (-)NCBI
RGSC_v3.41128,370,004 - 28,371,180 (-)RGD
Celera1127,543,124 - 27,544,300 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100582 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM10658 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000038862
  ENSRNOP00000038862.1
Reference Protein Sequences
RefSeq Acc Id: NP_001100582   ⟸   NM_001107112
- UniProtKB: D4A6L7 (UniProtKB/TrEMBL),   A6JL93 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000038862   ⟸   ENSRNOT00000032663

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A6L7-F1-model_v2 AlphaFold D4A6L7 1-224 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307462 AgrOrtholog
BioCyc Gene G2FUF-22030 BioCyc
Ensembl Genes ENSRNOG00000027691 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000032663 ENTREZGENE
  ENSRNOT00000032663.3 UniProtKB/TrEMBL
Gene3D-CATH 1.20.140.150 UniProtKB/TrEMBL
InterPro Claudin UniProtKB/TrEMBL
  Claudin_CS UniProtKB/TrEMBL
  PMP22/EMP/MP20/Claudin UniProtKB/TrEMBL
KEGG Report rno:304125 UniProtKB/TrEMBL
NCBI Gene 304125 ENTREZGENE
PANTHER Claudin UniProtKB/TrEMBL
  CLAUDIN-17 UniProtKB/TrEMBL
Pfam PMP22_Claudin UniProtKB/TrEMBL
PhenoGen Cldn17 PhenoGen
PRINTS CLAUDIN UniProtKB/TrEMBL
  CLAUDIN14 UniProtKB/TrEMBL
PROSITE CLAUDIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000027691 RatGTEx
UniProt A6JL93 ENTREZGENE, UniProtKB/TrEMBL
  D4A6L7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Cldn17  claudin 17   Cldn17_predicted  claudin 17 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cldn17_predicted  claudin 17 (predicted)      Symbol and Name status set to approved 70820 APPROVED