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PRDM6 (PR domain containing 6)

Identity

Alias_namesPR domain containing 6
PR domain 6
Alias_symbol (synonym)PRISM
Other alias-
HGNC (Hugo) PRDM6
LocusID (NCBI) 93166
Atlas_Id 72196
Location 5q23.2  [Link to chromosome band 5q23]
Location_base_pair Starts at 122424841 and ends at 122523745 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
PRDM6 (5q23.2) / NIPAL4 (5q33.3)

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)PRDM6   9350
Cards
Entrez_Gene (NCBI)PRDM6  93166  PR domain containing 6
Aliases
GeneCards (Weizmann)PRDM6
Ensembl hg19 (Hinxton)ENSG00000061455 [Gene_View]  chr5:122424841-122523745 [Contig_View]  PRDM6 [Vega]
Ensembl hg38 (Hinxton)ENSG00000061455 [Gene_View]  chr5:122424841-122523745 [Contig_View]  PRDM6 [Vega]
ICGC DataPortalENSG00000061455
TCGA cBioPortalPRDM6
AceView (NCBI)PRDM6
Genatlas (Paris)PRDM6
WikiGenes93166
SOURCE (Princeton)PRDM6
Genetics Home Reference (NIH)PRDM6
Genomic and cartography
GoldenPath hg19 (UCSC)PRDM6  -     chr5:122424841-122523745 +  5q23.2   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)PRDM6  -     5q23.2   [Description]    (hg38-Dec_2013)
EnsemblPRDM6 - 5q23.2 [CytoView hg19]  PRDM6 - 5q23.2 [CytoView hg38]
Mapping of homologs : NCBIPRDM6 [Mapview hg19]  PRDM6 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AF272898 AF272899 AK297992 HG498412
RefSeq transcript (Entrez)NM_001136239
RefSeq genomic (Entrez)NC_000005 NC_018916 NT_034772 NW_004929323
Consensus coding sequences : CCDS (NCBI)PRDM6
Cluster EST : UnigeneHs.135118 [ NCBI ]
CGAP (NCI)Hs.135118
Alternative Splicing GalleryENSG00000061455
Gene ExpressionPRDM6 [ NCBI-GEO ]   PRDM6 [ EBI - ARRAY_EXPRESS ]   PRDM6 [ SEEK ]   PRDM6 [ MEM ]
Gene Expression Viewer (FireBrowse)PRDM6 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)93166
GTEX Portal (Tissue expression)PRDM6
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NQX0   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NQX0  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NQX0
Splice isoforms : SwissVarQ9NQX0
Catalytic activity : Enzyme2.1.1.43 [ Enzyme-Expasy ]   2.1.1.432.1.1.43 [ IntEnz-EBI ]   2.1.1.43 [ BRENDA ]   2.1.1.43 [ KEGG ]   
PhosPhoSitePlusQ9NQX0
Domaine pattern : Prosite (Expaxy)SET (PS50280)    ZINC_FINGER_C2H2_1 (PS00028)    ZINC_FINGER_C2H2_2 (PS50157)   
Domains : Interpro (EBI)SET_dom    Znf_C2H2    Znf_C2H2-like    Znf_C2H2/integrase_DNA-bd   
Domain families : Pfam (Sanger)SET (PF00856)    zf-C2H2 (PF00096)   
Domain families : Pfam (NCBI)pfam00856    pfam00096   
Domain families : Smart (EMBL)SET (SM00317)  ZnF_C2H2 (SM00355)  
Conserved Domain (NCBI)PRDM6
DMDM Disease mutations93166
Blocks (Seattle)PRDM6
SuperfamilyQ9NQX0
Human Protein AtlasENSG00000061455
Peptide AtlasQ9NQX0
IPIIPI00248395   IPI00218376   IPI00921397   
Protein Interaction databases
DIP (DOE-UCLA)Q9NQX0
IntAct (EBI)Q9NQX0
FunCoupENSG00000061455
BioGRIDPRDM6
STRING (EMBL)PRDM6
ZODIACPRDM6
Ontologies - Pathways
QuickGOQ9NQX0
Ontology : AmiGOnucleic acid binding  nucleus  transcription, DNA-templated  histone-lysine N-methyltransferase activity  neurogenesis  histone lysine methylation  protein homodimerization activity  negative regulation of transcription, DNA-templated  metal ion binding  negative regulation of smooth muscle cell differentiation  
Ontology : EGO-EBInucleic acid binding  nucleus  transcription, DNA-templated  histone-lysine N-methyltransferase activity  neurogenesis  histone lysine methylation  protein homodimerization activity  negative regulation of transcription, DNA-templated  metal ion binding  negative regulation of smooth muscle cell differentiation  
NDEx NetworkPRDM6
Atlas of Cancer Signalling NetworkPRDM6
Wikipedia pathwaysPRDM6
Orthology - Evolution
OrthoDB93166
GeneTree (enSembl)ENSG00000061455
Phylogenetic Trees/Animal Genes : TreeFamPRDM6
HOVERGENQ9NQX0
HOGENOMQ9NQX0
Homologs : HomoloGenePRDM6
Homology/Alignments : Family Browser (UCSC)PRDM6
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPRDM6 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PRDM6
dbVarPRDM6
ClinVarPRDM6
1000_GenomesPRDM6 
Exome Variant ServerPRDM6
ExAC (Exome Aggregation Consortium)PRDM6 (select the gene name)
Genetic variants : HAPMAP93166
Genomic Variants (DGV)PRDM6 [DGVbeta]
DECIPHER (Syndromes)5:122424841-122523745  ENSG00000061455
CONAN: Copy Number AnalysisPRDM6 
Mutations
ICGC Data PortalPRDM6 
TCGA Data PortalPRDM6 
Broad Tumor PortalPRDM6
OASIS PortalPRDM6 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPRDM6  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPRDM6
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 PRDM6
DgiDB (Drug Gene Interaction Database)PRDM6
DoCM (Curated mutations)PRDM6 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PRDM6 (select a term)
intoGenPRDM6
Cancer3DPRDM6(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet208   
MedgenPRDM6
Genetic Testing Registry PRDM6
NextProtQ9NQX0 [Medical]
TSGene93166
GENETestsPRDM6
Huge Navigator PRDM6 [HugePedia]
snp3D : Map Gene to Disease93166
BioCentury BCIQPRDM6
ClinGenPRDM6
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD93166
Chemical/Pharm GKB GenePA33718
Clinical trialPRDM6
Miscellaneous
canSAR (ICR)PRDM6 (select the gene name)
Probes
Litterature
PubMed2 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePRDM6
EVEXPRDM6
GoPubMedPRDM6
iHOPPRDM6
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Mar 14 12:39:35 CET 2017

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