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PDZRN3 (PDZ domain containing ring finger 3)

Identity

Alias_symbol (synonym)KIAA1095
SEMACAP3
LNX3
Other aliasSEMCAP3
HGNC (Hugo) PDZRN3
LocusID (NCBI) 23024
Atlas_Id 47191
Location 3p13  [Link to chromosome band 3p13]
Location_base_pair Starts at 73431581 and ends at 73618666 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
PDZRN3 (3p13) / EIF4E3 (3p13)PDZRN3 (3p13) / FCAMR (1q32.1)PDZRN3 (3p13) / PDZRN3 (3p13)
PDZRN3 (3p13) / TMC1 (9q21.13)RASSF1 (3p21.31) / PDZRN3 (3p13)PDZRN3 3p13 / EIF4E3 3p13
PDZRN3 3p13 / FCAMR 1q32.1PDZRN3 3p13 / TMC1 9q21.13

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)PDZRN3   17704
Cards
Entrez_Gene (NCBI)PDZRN3  23024  PDZ domain containing ring finger 3
AliasesLNX3; SEMACAP3; SEMCAP3
GeneCards (Weizmann)PDZRN3
Ensembl hg19 (Hinxton)ENSG00000121440 [Gene_View]  chr3:73431581-73618666 [Contig_View]  PDZRN3 [Vega]
Ensembl hg38 (Hinxton)ENSG00000121440 [Gene_View]  chr3:73431581-73618666 [Contig_View]  PDZRN3 [Vega]
ICGC DataPortalENSG00000121440
TCGA cBioPortalPDZRN3
AceView (NCBI)PDZRN3
Genatlas (Paris)PDZRN3
WikiGenes23024
SOURCE (Princeton)PDZRN3
Genetics Home Reference (NIH)PDZRN3
Genomic and cartography
GoldenPath hg19 (UCSC)PDZRN3  -     chr3:73431581-73618666 -  3p13   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)PDZRN3  -     3p13   [Description]    (hg38-Dec_2013)
EnsemblPDZRN3 - 3p13 [CytoView hg19]  PDZRN3 - 3p13 [CytoView hg38]
Mapping of homologs : NCBIPDZRN3 [Mapview hg19]  PDZRN3 [Mapview hg38]
OMIM609729   
Gene and transcription
Genbank (Entrez)AB029018 AK021708 AK074573 AK130896 AK294761
RefSeq transcript (Entrez)NM_001303139 NM_001303140 NM_001303141 NM_001303142 NM_015009
RefSeq genomic (Entrez)NC_000003 NC_018914 NT_022517 NW_004929310
Consensus coding sequences : CCDS (NCBI)PDZRN3
Cluster EST : UnigeneHs.743998 [ NCBI ]
CGAP (NCI)Hs.743998
Alternative Splicing GalleryENSG00000121440
Gene ExpressionPDZRN3 [ NCBI-GEO ]   PDZRN3 [ EBI - ARRAY_EXPRESS ]   PDZRN3 [ SEEK ]   PDZRN3 [ MEM ]
Gene Expression Viewer (FireBrowse)PDZRN3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)23024
GTEX Portal (Tissue expression)PDZRN3
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UPQ7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UPQ7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UPQ7
Splice isoforms : SwissVarQ9UPQ7
Catalytic activity : Enzyme6.3.2.- [ Enzyme-Expasy ]   6.3.2.-6.3.2.- [ IntEnz-EBI ]   6.3.2.- [ BRENDA ]   6.3.2.- [ KEGG ]   
PhosPhoSitePlusQ9UPQ7
Domaine pattern : Prosite (Expaxy)PDZ (PS50106)    ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)    ZF_TRAF (PS50145)   
Domains : Interpro (EBI)PDZ    SIAH-type    TRAF-like    Znf_C3HC4_RING-type    Znf_RING    Znf_RING/FYVE/PHD    Znf_RING_CS    Znf_TRAF   
Domain families : Pfam (Sanger)PDZ (PF00595)    zf-C3HC4 (PF00097)   
Domain families : Pfam (NCBI)pfam00595    pfam00097   
Domain families : Smart (EMBL)PDZ (SM00228)  RING (SM00184)  
Conserved Domain (NCBI)PDZRN3
DMDM Disease mutations23024
Blocks (Seattle)PDZRN3
PDB (SRS)1UHP    1WH1   
PDB (PDBSum)1UHP    1WH1   
PDB (IMB)1UHP    1WH1   
PDB (RSDB)1UHP    1WH1   
Structural Biology KnowledgeBase1UHP    1WH1   
SCOP (Structural Classification of Proteins)1UHP    1WH1   
CATH (Classification of proteins structures)1UHP    1WH1   
SuperfamilyQ9UPQ7
Human Protein AtlasENSG00000121440
Peptide AtlasQ9UPQ7
HPRD15115
IPIIPI00010322   IPI00060391   IPI00384053   IPI01013912   IPI00947257   IPI00946625   IPI00798027   IPI00796578   
Protein Interaction databases
DIP (DOE-UCLA)Q9UPQ7
IntAct (EBI)Q9UPQ7
FunCoupENSG00000121440
BioGRIDPDZRN3
STRING (EMBL)PDZRN3
ZODIACPDZRN3
Ontologies - Pathways
QuickGOQ9UPQ7
Ontology : AmiGOubiquitin-protein transferase activity  neuromuscular junction development  zinc ion binding  protein ubiquitination  protein ubiquitination  ligase activity  neuromuscular junction  ubiquitin protein ligase activity  
Ontology : EGO-EBIubiquitin-protein transferase activity  neuromuscular junction development  zinc ion binding  protein ubiquitination  protein ubiquitination  ligase activity  neuromuscular junction  ubiquitin protein ligase activity  
NDEx NetworkPDZRN3
Atlas of Cancer Signalling NetworkPDZRN3
Wikipedia pathwaysPDZRN3
Orthology - Evolution
OrthoDB23024
GeneTree (enSembl)ENSG00000121440
Phylogenetic Trees/Animal Genes : TreeFamPDZRN3
HOVERGENQ9UPQ7
HOGENOMQ9UPQ7
Homologs : HomoloGenePDZRN3
Homology/Alignments : Family Browser (UCSC)PDZRN3
Gene fusions - Rearrangements
Fusion : MitelmanPDZRN3/FCAMR [3p13/1q32.1]  
Fusion : MitelmanPDZRN3/TMC1 [3p13/9q21.13]  [t(3;9)(p13;q21)]  
Fusion: TCGAPDZRN3 3p13 EIF4E3 3p13 PRAD
Fusion: TCGAPDZRN3 3p13 FCAMR 1q32.1 BRCA
Fusion: TCGAPDZRN3 3p13 TMC1 9q21.13 LGG
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPDZRN3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PDZRN3
dbVarPDZRN3
ClinVarPDZRN3
1000_GenomesPDZRN3 
Exome Variant ServerPDZRN3
ExAC (Exome Aggregation Consortium)PDZRN3 (select the gene name)
Genetic variants : HAPMAP23024
Genomic Variants (DGV)PDZRN3 [DGVbeta]
DECIPHER (Syndromes)3:73431581-73618666  ENSG00000121440
CONAN: Copy Number AnalysisPDZRN3 
Mutations
ICGC Data PortalPDZRN3 
TCGA Data PortalPDZRN3 
Broad Tumor PortalPDZRN3
OASIS PortalPDZRN3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPDZRN3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPDZRN3
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch PDZRN3
DgiDB (Drug Gene Interaction Database)PDZRN3
DoCM (Curated mutations)PDZRN3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PDZRN3 (select a term)
intoGenPDZRN3
Cancer3DPDZRN3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM609729   
Orphanet
MedgenPDZRN3
Genetic Testing Registry PDZRN3
NextProtQ9UPQ7 [Medical]
TSGene23024
GENETestsPDZRN3
Huge Navigator PDZRN3 [HugePedia]
snp3D : Map Gene to Disease23024
BioCentury BCIQPDZRN3
ClinGenPDZRN3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD23024
Chemical/Pharm GKB GenePA134931098
Clinical trialPDZRN3
Miscellaneous
canSAR (ICR)PDZRN3 (select the gene name)
Probes
Litterature
PubMed26 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePDZRN3
EVEXPDZRN3
GoPubMedPDZRN3
iHOPPDZRN3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Mar 30 15:13:59 CEST 2017

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