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PDZRN4 (PDZ domain containing ring finger 4)

Identity

Alias_symbol (synonym)DKFZp434B0417
LNX4
FLJ33777
IMAGE5767589
Other aliasSAMCAP3L
HGNC (Hugo) PDZRN4
LocusID (NCBI) 29951
Atlas_Id 47446
Location 12q12  [Link to chromosome band 12q12]
Location_base_pair Starts at 41188448 and ends at 41574590 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
AAK1 (2p13.3) / PDZRN4 (12q12)CCDC91 (12p11.22) / PDZRN4 (12q12)FOCAD (9p21.3) / PDZRN4 (12q12)
PDZRN4 (12q12) / CPM (12q15)PHACTR2 (6q24.2) / PDZRN4 (12q12)TOMM40 (19q13.32) / PDZRN4 (12q12)
TPD52L2 (20q13.33) / PDZRN4 (12q12)CCDC91 12p11.22 / PDZRN4 12q12KIAA1797 PDZRN4 12q12
PDZRN4 12q12 / CPM 12q15TOMM40 19q13.32 / PDZRN4 12q12TPD52L2 20q13.33 / PDZRN4 12q12

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)PDZRN4   30552
Cards
Entrez_Gene (NCBI)PDZRN4  29951  PDZ domain containing ring finger 4
AliasesLNX4; SAMCAP3L
GeneCards (Weizmann)PDZRN4
Ensembl hg19 (Hinxton)ENSG00000165966 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000165966 [Gene_View]  chr12:41188448-41574590 [Contig_View]  PDZRN4 [Vega]
ICGC DataPortalENSG00000165966
TCGA cBioPortalPDZRN4
AceView (NCBI)PDZRN4
Genatlas (Paris)PDZRN4
WikiGenes29951
SOURCE (Princeton)PDZRN4
Genetics Home Reference (NIH)PDZRN4
Genomic and cartography
GoldenPath hg38 (UCSC)PDZRN4  -     chr12:41188448-41574590 +  12q12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PDZRN4  -     12q12   [Description]    (hg19-Feb_2009)
EnsemblPDZRN4 - 12q12 [CytoView hg19]  PDZRN4 - 12q12 [CytoView hg38]
Mapping of homologs : NCBIPDZRN4 [Mapview hg19]  PDZRN4 [Mapview hg38]
OMIM609730   
Gene and transcription
Genbank (Entrez)AK091096 AK094690 AK131554 AK294431 AK294535
RefSeq transcript (Entrez)NM_001164595 NM_013377
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PDZRN4
Cluster EST : UnigeneHs.380044 [ NCBI ]
CGAP (NCI)Hs.380044
Alternative Splicing GalleryENSG00000165966
Gene ExpressionPDZRN4 [ NCBI-GEO ]   PDZRN4 [ EBI - ARRAY_EXPRESS ]   PDZRN4 [ SEEK ]   PDZRN4 [ MEM ]
Gene Expression Viewer (FireBrowse)PDZRN4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)29951
GTEX Portal (Tissue expression)PDZRN4
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ6ZMN7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ6ZMN7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ6ZMN7
Splice isoforms : SwissVarQ6ZMN7
PhosPhoSitePlusQ6ZMN7
Domaine pattern : Prosite (Expaxy)PDZ (PS50106)    ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)PDZ    SIAH-type    TRAF-like    Znf_RING    Znf_RING/FYVE/PHD    Znf_RING_CS   
Domain families : Pfam (Sanger)PDZ (PF00595)   
Domain families : Pfam (NCBI)pfam00595   
Domain families : Smart (EMBL)PDZ (SM00228)  RING (SM00184)  
Conserved Domain (NCBI)PDZRN4
DMDM Disease mutations29951
Blocks (Seattle)PDZRN4
SuperfamilyQ6ZMN7
Human Protein AtlasENSG00000165966
Peptide AtlasQ6ZMN7
HPRD15116
IPIIPI00549996   IPI00216864   IPI00747292   
Protein Interaction databases
DIP (DOE-UCLA)Q6ZMN7
IntAct (EBI)Q6ZMN7
FunCoupENSG00000165966
BioGRIDPDZRN4
STRING (EMBL)PDZRN4
ZODIACPDZRN4
Ontologies - Pathways
QuickGOQ6ZMN7
Ontology : AmiGOzinc ion binding  
Ontology : EGO-EBIzinc ion binding  
NDEx NetworkPDZRN4
Atlas of Cancer Signalling NetworkPDZRN4
Wikipedia pathwaysPDZRN4
Orthology - Evolution
OrthoDB29951
GeneTree (enSembl)ENSG00000165966
Phylogenetic Trees/Animal Genes : TreeFamPDZRN4
HOVERGENQ6ZMN7
HOGENOMQ6ZMN7
Homologs : HomoloGenePDZRN4
Homology/Alignments : Family Browser (UCSC)PDZRN4
Gene fusions - Rearrangements
Fusion : MitelmanCCDC91/PDZRN4 [12p11.22/12q12]  [t(12;12)(p11;q12)]  
Fusion : MitelmanFOCAD/PDZRN4 [9p21.3/12q12]  [t(9;12)(p21;q12)]  
Fusion : MitelmanTOMM40/PDZRN4 [19q13.32/12q12]  [t(12;19)(q12;q13)]  
Fusion : MitelmanTPD52L2/PDZRN4 [20q13.33/12q12]  [t(12;20)(q12;q13)]  
Fusion: TCGACCDC91 12p11.22 PDZRN4 12q12 LUSC
Fusion: TCGAKIAA1797 PDZRN4 12q12 PRAD
Fusion: TCGAPDZRN4 12q12 CPM 12q15 GBM
Fusion: TCGATOMM40 19q13.32 PDZRN4 12q12 BLCA
Fusion: TCGATPD52L2 20q13.33 PDZRN4 12q12 LUAD
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPDZRN4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PDZRN4
dbVarPDZRN4
ClinVarPDZRN4
1000_GenomesPDZRN4 
Exome Variant ServerPDZRN4
ExAC (Exome Aggregation Consortium)PDZRN4 (select the gene name)
Genetic variants : HAPMAP29951
Genomic Variants (DGV)PDZRN4 [DGVbeta]
DECIPHERPDZRN4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPDZRN4 
Mutations
ICGC Data PortalPDZRN4 
TCGA Data PortalPDZRN4 
Broad Tumor PortalPDZRN4
OASIS PortalPDZRN4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPDZRN4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPDZRN4
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 PDZRN4
DgiDB (Drug Gene Interaction Database)PDZRN4
DoCM (Curated mutations)PDZRN4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PDZRN4 (select a term)
intoGenPDZRN4
Cancer3DPDZRN4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM609730   
Orphanet
MedgenPDZRN4
Genetic Testing Registry PDZRN4
NextProtQ6ZMN7 [Medical]
TSGene29951
GENETestsPDZRN4
Huge Navigator PDZRN4 [HugePedia]
snp3D : Map Gene to Disease29951
BioCentury BCIQPDZRN4
ClinGenPDZRN4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD29951
Chemical/Pharm GKB GenePA134974780
Clinical trialPDZRN4
Miscellaneous
canSAR (ICR)PDZRN4 (select the gene name)
Probes
Litterature
PubMed13 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePDZRN4
EVEXPDZRN4
GoPubMedPDZRN4
iHOPPDZRN4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Fri May 19 12:30:48 CEST 2017

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