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PRDM6 (PR/SET domain 6)

Identity

Alias (NCBI)KMT8C
PDA3
PRISM
HGNC (Hugo) PRDM6
HGNC Alias symbPRISM
HGNC Previous namePR domain containing 6
 PR domain 6
LocusID (NCBI) 93166
Atlas_Id 72196
Location 5q23.2  [Link to chromosome band 5q23]
Location_base_pair Starts at 123089241 and ends at 123194266 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
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    PR/SET domain 6
AliasesKMT8C; PDA3; PRISM
GeneCards (Weizmann)PRDM6
Ensembl hg19 (Hinxton)ENSG00000061455 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000061455 [Gene_View]  ENSG00000061455 [Sequence]  chr5:123089241-123194266 [Contig_View]  PRDM6 [Vega]
ICGC DataPortalENSG00000061455
TCGA cBioPortalPRDM6
AceView (NCBI)PRDM6
Genatlas (Paris)PRDM6
SOURCE (Princeton)PRDM6
Genetics Home Reference (NIH)PRDM6
Genomic and cartography
GoldenPath hg38 (UCSC)PRDM6  -     chr5:123089241-123194266 +  5q23.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PRDM6  -     5q23.2   [Description]    (hg19-Feb_2009)
GoldenPathPRDM6 - 5q23.2 [CytoView hg19]  PRDM6 - 5q23.2 [CytoView hg38]
ImmunoBaseENSG00000061455
Genome Data Viewer NCBIPRDM6 [Mapview hg19]  
OMIM616982   617039   
Gene and transcription
Genbank (Entrez)AF272898 AF272899 AK297992
RefSeq transcript (Entrez)NM_001136239
Consensus coding sequences : CCDS (NCBI)PRDM6
Gene ExpressionPRDM6 [ NCBI-GEO ]   PRDM6 [ EBI - ARRAY_EXPRESS ]   PRDM6 [ SEEK ]   PRDM6 [ MEM ]
Gene Expression Viewer (FireBrowse)PRDM6 [ Firebrowse - Broad ]
GenevisibleExpression of PRDM6 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)93166
GTEX Portal (Tissue expression)PRDM6
Human Protein AtlasENSG00000061455-PRDM6 [pathology]   [cell]   [tissue]
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
PhosPhoSitePlusQ9NQX0
Domaine pattern : Prosite (Expaxy)SET (PS50280)    ZINC_FINGER_C2H2_1 (PS00028)    ZINC_FINGER_C2H2_2 (PS50157)   
Domains : Interpro (EBI)SET_dom    Znf_C2H2_sf    Znf_C2H2_type   
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
SuperfamilyQ9NQX0
AlphaFold pdb e-kbQ9NQX0   
Human Protein Atlas [tissue]ENSG00000061455-PRDM6 [tissue]
Protein Interaction databases
DIP (DOE-UCLA)Q9NQX0
IntAct (EBI)Q9NQX0
BioGRIDPRDM6
STRING (EMBL)PRDM6
ZODIACPRDM6
Ontologies - Pathways
QuickGOQ9NQX0
Ontology : AmiGOnegative regulation of transcription by RNA polymerase II  protein binding  nucleus  regulation of gene expression  histone methylation  neurogenesis  histone methyltransferase activity  identical protein binding  metal ion binding  negative regulation of smooth muscle cell differentiation  
Ontology : EGO-EBInegative regulation of transcription by RNA polymerase II  protein binding  nucleus  regulation of gene expression  histone methylation  neurogenesis  histone methyltransferase activity  identical protein binding  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
Homologs : HomoloGenePRDM6
Homology/Alignments : Family Browser (UCSC)PRDM6
Gene fusions - Rearrangements
Fusion : QuiverPRDM6
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPRDM6 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PRDM6
dbVarPRDM6
ClinVarPRDM6
MonarchPRDM6
1000_GenomesPRDM6 
Exome Variant ServerPRDM6
GNOMAD BrowserENSG00000061455
Varsome BrowserPRDM6
ACMGPRDM6 variants
VarityQ9NQX0
Genomic Variants (DGV)PRDM6 [DGVbeta]
DECIPHERPRDM6 [patients]   [syndromes]   [variants]   [genes]  
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]  
Somatic Mutations in Cancer : COSMIC3DPRDM6
Mutations and Diseases : HGMDPRDM6
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaPRDM6
DgiDB (Drug Gene Interaction Database)PRDM6
DoCM (Curated mutations)PRDM6
CIViC (Clinical Interpretations of Variants in Cancer)PRDM6
Cancer3DPRDM6
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM616982    617039   
Orphanet208   
DisGeNETPRDM6
MedgenPRDM6
Genetic Testing Registry PRDM6
NextProtQ9NQX0 [Medical]
GENETestsPRDM6
Target ValidationPRDM6
Huge Navigator PRDM6 [HugePedia]
ClinGenPRDM6
Clinical trials, drugs, therapy
MyCancerGenomePRDM6
Protein Interactions : CTDPRDM6
Pharm GKB GenePA33718
PharosQ9NQX0
Clinical trialPRDM6
Miscellaneous
canSAR (ICR)PRDM6
HarmonizomePRDM6
DataMed IndexPRDM6
Probes
Litterature
PubMed12 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXPRDM6
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Oct 4 16:17:05 CEST 2021

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