Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

SETD4 (SET domain containing 4)

Identity

Alias_namesC21orf27
C21orf18
chromosome 21 open reading frame 27
chromosome 21 open reading frame 18
Other alias
HGNC (Hugo) SETD4
LocusID (NCBI) 54093
Atlas_Id 73155
Location 21q22.12  [Link to chromosome band 21q22]
Location_base_pair Starts at 36043684 and ends at 36060364 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ALB (4q13.3) / SETD4 (21q22.12)HDGFRP2 (19p13.3) / SETD4 (21q22.12)SETD4 (21q22.12) / ANKRD17 (4q13.3)
SETD4 (21q22.12) / B4GALT6 (18q12.1)SETD4 (21q22.12) / FTCD (21q22.3)SETD4 FTCD
SETD4 B4GALT6

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)SETD4   1258
Cards
Entrez_Gene (NCBI)SETD4  54093  SET domain containing 4
AliasesC21orf18; C21orf27
GeneCards (Weizmann)SETD4
Ensembl hg19 (Hinxton)ENSG00000185917 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000185917 [Gene_View]  chr21:36043684-36060364 [Contig_View]  SETD4 [Vega]
ICGC DataPortalENSG00000185917
TCGA cBioPortalSETD4
AceView (NCBI)SETD4
Genatlas (Paris)SETD4
WikiGenes54093
SOURCE (Princeton)SETD4
Genetics Home Reference (NIH)SETD4
Genomic and cartography
GoldenPath hg38 (UCSC)SETD4  -     chr21:36043684-36060364 -  21q22.12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SETD4  -     21q22.12   [Description]    (hg19-Feb_2009)
EnsemblSETD4 - 21q22.12 [CytoView hg19]  SETD4 - 21q22.12 [CytoView hg38]
Mapping of homologs : NCBISETD4 [Mapview hg19]  SETD4 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AB004848 AB004849 AB004852 AB004853 AF391112
RefSeq transcript (Entrez)NM_001007258 NM_001007259 NM_001007260 NM_001007261 NM_001007262 NM_001286752 NM_017438
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SETD4
Cluster EST : UnigeneHs.606200 [ NCBI ]
CGAP (NCI)Hs.606200
Alternative Splicing GalleryENSG00000185917
Gene ExpressionSETD4 [ NCBI-GEO ]   SETD4 [ EBI - ARRAY_EXPRESS ]   SETD4 [ SEEK ]   SETD4 [ MEM ]
Gene Expression Viewer (FireBrowse)SETD4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)54093
GTEX Portal (Tissue expression)SETD4
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NVD3   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NVD3  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NVD3
Splice isoforms : SwissVarQ9NVD3
PhosPhoSitePlusQ9NVD3
Domaine pattern : Prosite (Expaxy)SET (PS50280)   
Domains : Interpro (EBI)Rubisco_LSMT_subst-bd    SET_dom    SET_MeTrfase   
Domain families : Pfam (Sanger)Rubis-subs-bind (PF09273)    SET (PF00856)   
Domain families : Pfam (NCBI)pfam09273    pfam00856   
Conserved Domain (NCBI)SETD4
DMDM Disease mutations54093
Blocks (Seattle)SETD4
SuperfamilyQ9NVD3
Human Protein AtlasENSG00000185917
Peptide AtlasQ9NVD3
HPRD10743
IPIIPI00019322   IPI00218580   IPI00792793   IPI00879790   IPI00748436   IPI00795402   IPI00477746   IPI00796039   IPI00796595   IPI00965322   IPI00791050   IPI00789089   
Protein Interaction databases
DIP (DOE-UCLA)Q9NVD3
IntAct (EBI)Q9NVD3
FunCoupENSG00000185917
BioGRIDSETD4
STRING (EMBL)SETD4
ZODIACSETD4
Ontologies - Pathways
QuickGOQ9NVD3
Ontology : AmiGOnucleolus  protein-lysine N-methyltransferase activity  peptidyl-lysine trimethylation  peptidyl-lysine monomethylation  ribosome biogenesis  
Ontology : EGO-EBInucleolus  protein-lysine N-methyltransferase activity  peptidyl-lysine trimethylation  peptidyl-lysine monomethylation  ribosome biogenesis  
NDEx NetworkSETD4
Atlas of Cancer Signalling NetworkSETD4
Wikipedia pathwaysSETD4
Orthology - Evolution
OrthoDB54093
GeneTree (enSembl)ENSG00000185917
Phylogenetic Trees/Animal Genes : TreeFamSETD4
HOVERGENQ9NVD3
HOGENOMQ9NVD3
Homologs : HomoloGeneSETD4
Homology/Alignments : Family Browser (UCSC)SETD4
Gene fusions - Rearrangements
Fusion: TCGASETD4 FTCD
Fusion: TCGASETD4 B4GALT6
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSETD4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SETD4
dbVarSETD4
ClinVarSETD4
1000_GenomesSETD4 
Exome Variant ServerSETD4
ExAC (Exome Aggregation Consortium)SETD4 (select the gene name)
Genetic variants : HAPMAP54093
Genomic Variants (DGV)SETD4 [DGVbeta]
DECIPHERSETD4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSETD4 
Mutations
ICGC Data PortalSETD4 
TCGA Data PortalSETD4 
Broad Tumor PortalSETD4
OASIS PortalSETD4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSETD4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSETD4
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 SETD4
DgiDB (Drug Gene Interaction Database)SETD4
DoCM (Curated mutations)SETD4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SETD4 (select a term)
intoGenSETD4
Cancer3DSETD4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenSETD4
Genetic Testing Registry SETD4
NextProtQ9NVD3 [Medical]
TSGene54093
GENETestsSETD4
Target ValidationSETD4
Huge Navigator SETD4 [HugePedia]
snp3D : Map Gene to Disease54093
BioCentury BCIQSETD4
ClinGenSETD4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD54093
Chemical/Pharm GKB GenePA25814
Clinical trialSETD4
Miscellaneous
canSAR (ICR)SETD4 (select the gene name)
Probes
Litterature
PubMed11 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSETD4
EVEXSETD4
GoPubMedSETD4
iHOPSETD4
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 : Mon Sep 18 13:37:37 CEST 2017

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.