Cldn34b (claudin 34B) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Cldn34b (claudin 34B) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Cldn34b (Ensembl: LOC680190)
Name: claudin 34B (Ensembl:hypothetical protein LOC680190)
RGD ID: 1592987
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 CLDN34 (claudin 34); INTERACTS WITH acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: claudin-34; hypothetical protein LOC680342; LOC680342; rCG36429-like; uncharacterized protein LOC680342
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X44,396,219 - 44,402,241 (-)NCBIGRCr8
mRatBN7.2X40,517,494 - 40,523,518 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX40,517,517 - 40,523,506 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X43,780,712 - 43,786,767 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX43,780,960 - 43,781,586 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X44,085,110 - 44,091,170 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X62,002,202 - 62,002,828 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX41,182,412 - 41,188,632 (-)NCBICelera
Cytogenetic MapXq21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
acrylamide  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

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.

Genomics

Variants

.
Variants in Cldn34b
34 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:84
Count of miRNA genes:68
Interacting mature miRNAs:70
Transcripts:ENSRNOT00000051551
Prediction methods:Microtar, Miranda, Pita, 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
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1529780260297802Rat
1598873Memor2Memory QTL 22.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)X2099094741052531Rat
2290375Gluco34Glucose level QTL 342.75blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X2099094741203591Rat


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

reproductive system
High
Medium 3
Low 4
Below cutoff 11

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000051551   ⟹   ENSRNOP00000039199
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX43,780,960 - 43,781,586 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000084562   ⟹   ENSRNOP00000071460
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX40,517,517 - 40,523,506 (-)Ensembl
RefSeq Acc Id: NM_001408871   ⟹   NP_001395800
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X44,396,219 - 44,402,241 (-)NCBI
mRatBN7.2X40,517,494 - 40,523,518 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001395800 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL96091 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000071460
  ENSRNOP00000071460.2
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000039199   ⟸   ENSRNOT00000051551
RefSeq Acc Id: ENSRNOP00000071460   ⟸   ENSRNOT00000084562
RefSeq Acc Id: NP_001395800   ⟸   NM_001408871
- UniProtKB: A0A0G2K0I5 (UniProtKB/TrEMBL),   A6IPS2 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZLE3-F1-model_v2 AlphaFold D3ZLE3 1-208 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:1592987 AgrOrtholog
BioCyc Gene G2FUF-2429 BioCyc
Ensembl Genes ENSRNOG00000047829 Ensembl
  ENSRNOG00000065503 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000084562 ENTREZGENE
  ENSRNOT00000084562.2 UniProtKB/TrEMBL
Gene3D-CATH 1.20.140.150 UniProtKB/TrEMBL
InterPro Claudin UniProtKB/TrEMBL
  PMP22/EMP/MP20/Claudin UniProtKB/TrEMBL
KEGG Report rno:680342 UniProtKB/TrEMBL
NCBI Gene 680342 ENTREZGENE
PANTHER CLAUDIN 34B1-RELATED UniProtKB/TrEMBL
  PTHR12002 UniProtKB/TrEMBL
Pfam Claudin_2 UniProtKB/TrEMBL
PhenoGen Cldn34b PhenoGen
RatGTEx ENSRNOG00000047829 RatGTEx
  ENSRNOG00000065503 RatGTEx
UniProt A0A0G2K0I5 ENTREZGENE, UniProtKB/TrEMBL
  A6IPS2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-04-28 Cldn34b  claudin 34B  LOC680342  hypothetical protein LOC680342  Name and Symbol changed 629549 APPROVED
2013-05-24 LOC680342  hypothetical protein LOC680342  LOC100365243  rCG36429-like  Data merged from RGD:2319431 1643240 APPROVED
2010-05-05 LOC100365243  rCG36429-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-01-09 LOC680342  hypothetical protein LOC680342  LOC681512  hypothetical protein LOC681512  Data merged from RGD:1594121 1643240 APPROVED
2006-11-20 LOC680342  hypothetical protein LOC680342      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC681512  hypothetical protein LOC681512      Symbol and Name status set to provisional 70820 PROVISIONAL