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Cldn16 claudin 16 [ Rattus norvegicus (Norway rat) ]

Gene ID: 155268, updated on 7-Oct-2018

Summary

Official Symbol
Cldn16provided by RGD
Official Full Name
claudin 16provided by RGD
Primary source
RGD:620322
See related
Ensembl:ENSRNOG00000055138
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Pcln1
Summary
renal tight junction protein; involved in paracellular transport of magnesium and calcium [RGD, Feb 2006]
Expression
Restricted expression toward (RPKM 159.7) See more
Orthologs

Genomic context

See Cldn16 in Genome Data Viewer
Location:
11q22
Exon count:
5
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (77683942..77703232, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 11 NC_005110.3 (83013610..83035155)

Chromosome 11 - NC_005110.4Genomic Context describing neighboring genes Neighboring gene interleukin 1 receptor accessory protein Neighboring gene uncharacterized LOC103690593 Neighboring gene transmembrane protein 207 Neighboring gene similar to poly(A) binding protein, cytoplasmic 4 isoform 2 Neighboring gene claudin 1

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Cell adhesion molecules (CAMs), organism-specific biosystem (from KEGG)
    Cell adhesion molecules (CAMs), organism-specific biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
  • Cell adhesion molecules (CAMs), conserved biosystem (from KEGG)
    Cell adhesion molecules (CAMs), conserved biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
  • Hepatitis C, organism-specific biosystem (from KEGG)
    Hepatitis C, organism-specific biosystemHepatitis C virus (HCV) is a major cause of chronic liver disease. The HCV employ several strategies to perturb host cell immunity. After invasion, HCV RNA genome functions directly as an mRNA in the...
  • Hepatitis C, conserved biosystem (from KEGG)
    Hepatitis C, conserved biosystemHepatitis C virus (HCV) is a major cause of chronic liver disease. The HCV employ several strategies to perturb host cell immunity. After invasion, HCV RNA genome functions directly as an mRNA in the...
  • Leukocyte transendothelial migration, organism-specific biosystem (from KEGG)
    Leukocyte transendothelial migration, organism-specific biosystemLeukocyte migaration from the blood into tissues is vital for immune surveillance and inflammation. During this diapedesis of leukocytes, the leukocytes bind to endothelial cell adhesion molecules (C...
  • Leukocyte transendothelial migration, conserved biosystem (from KEGG)
    Leukocyte transendothelial migration, conserved biosystemLeukocyte migaration from the blood into tissues is vital for immune surveillance and inflammation. During this diapedesis of leukocytes, the leukocytes bind to endothelial cell adhesion molecules (C...
  • Tight junction, organism-specific biosystem (from KEGG)
    Tight junction, organism-specific biosystemTight junctions (TJs) are essential for establishing a selectively permeable barrier to diffusion through the paracellular space between neighboring cells. TJs are composed of at least three types of...
  • Tight junction, conserved biosystem (from KEGG)
    Tight junction, conserved biosystemTight junctions (TJs) are essential for establishing a selectively permeable barrier to diffusion through the paracellular space between neighboring cells. TJs are composed of at least three types of...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
identical protein binding ISS
Inferred from Sequence or Structural Similarity
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
structural molecule activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules ISS
Inferred from Sequence or Structural Similarity
more info
 
ion transport IEA
Inferred from Electronic Annotation
more info
 
positive regulation of calcium ion transport IDA
Inferred from Direct Assay
more info
PubMed 
transepithelial transport IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
bicellular tight junction IDA
Inferred from Direct Assay
more info
PubMed 
bicellular tight junction IEA
Inferred from Electronic Annotation
more info
 
bicellular tight junction ISO
Inferred from Sequence Orthology
more info
 
bicellular tight junction ISS
Inferred from Sequence or Structural Similarity
more info
 
bicellular tight junction TAS
Traceable Author Statement
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
claudin-16
Names
paracellin-1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_131905.2NP_571980.2  claudin-16

    See identical proteins and their annotated locations for NP_571980.2

    Status: VALIDATED

    Source sequence(s)
    AC125303
    UniProtKB/TrEMBL
    A0A0G2K8J2
    Related
    ENSRNOP00000074628.1, ENSRNOT00000083319.1
    Conserved Domains (1) summary
    cl21598
    Location:11183
    PMP22_Claudin; PMP-22/EMP/MP20/Claudin family

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005110.4 Reference Rnor_6.0 Primary Assembly

    Range
    77683942..77703232 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000079.1 Alternate Rn_Celera

    Range
    73208029..73227202 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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