Atlas of Genetics and Cytogenetics in Oncology and Haematology

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SP4 (Sp4 transcription factor)

Identity

Alias (NCBI)HF1B
SPR-1
HGNC (Hugo) SP4
HGNC Alias symbSPR-1
HF1B
MGC130008
MGC130009
LocusID (NCBI) 6671
Atlas_Id 50320
Location 7p15.3  [Link to chromosome band 7p15]
Location_base_pair Starts at 21428083 and ends at 21514822 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)
SP4 (7p15.3) / GPNMB (7p15.3)SP4 7p15.3 / GPNMB 7p15.3

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

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  SP4/GPNMB (7p15)

External links

Nomenclature
HGNC (Hugo)SP4   11209
Cards
Entrez_Gene (NCBI)SP4    Sp4 transcription factor
AliasesHF1B; SPR-1
GeneCards (Weizmann)SP4
Ensembl hg19 (Hinxton)ENSG00000105866 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000105866 [Gene_View]  ENSG00000105866 [Sequence]  chr7:21428083-21514822 [Contig_View]  SP4 [Vega]
ICGC DataPortalENSG00000105866
TCGA cBioPortalSP4
AceView (NCBI)SP4
Genatlas (Paris)SP4
SOURCE (Princeton)SP4
Genetics Home Reference (NIH)SP4
Genomic and cartography
GoldenPath hg38 (UCSC)SP4  -     chr7:21428083-21514822 +  7p15.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SP4  -     7p15.3   [Description]    (hg19-Feb_2009)
GoldenPathSP4 - 7p15.3 [CytoView hg19]  SP4 - 7p15.3 [CytoView hg38]
ImmunoBaseENSG00000105866
genome Data Viewer NCBISP4 [Mapview hg19]  
OMIM600540   
Gene and transcription
Genbank (Entrez)AK289728 AK296749 BC015512 BC109300 BC109301
RefSeq transcript (Entrez)NM_001326542 NM_001326543 NM_003112
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SP4
Alternative Splicing GalleryENSG00000105866
Gene ExpressionSP4 [ NCBI-GEO ]   SP4 [ EBI - ARRAY_EXPRESS ]   SP4 [ SEEK ]   SP4 [ MEM ]
Gene Expression Viewer (FireBrowse)SP4 [ Firebrowse - Broad ]
GenevisibleExpression of SP4 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6671
GTEX Portal (Tissue expression)SP4
Human Protein AtlasENSG00000105866-SP4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ02446   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ02446  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ02446
Splice isoforms : SwissVarQ02446
PhosPhoSitePlusQ02446
Domaine pattern : Prosite (Expaxy)ZINC_FINGER_C2H2_1 (PS00028)    ZINC_FINGER_C2H2_2 (PS50157)   
Domains : Interpro (EBI)SP4    Znf_C2H2_sf    Znf_C2H2_type   
Domain families : Pfam (Sanger)zf-C2H2 (PF00096)   
Domain families : Pfam (NCBI)pfam00096   
Domain families : Smart (EMBL)ZnF_C2H2 (SM00355)  
Conserved Domain (NCBI)SP4
Blocks (Seattle)SP4
SuperfamilyQ02446
Human Protein Atlas [tissue]ENSG00000105866-SP4 [tissue]
Peptide AtlasQ02446
HPRD02764
IPIIPI00025805   IPI00910576   IPI00892800   IPI00916744   
Protein Interaction databases
DIP (DOE-UCLA)Q02446
IntAct (EBI)Q02446
BioGRIDSP4
STRING (EMBL)SP4
ZODIACSP4
Ontologies - Pathways
QuickGOQ02446
Ontology : AmiGOnuclear chromatin  transcription regulatory region sequence-specific DNA binding  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  transcription coactivator activity  protein binding  nucleus  nucleoplasm  cytosol  regulation of transcription by RNA polymerase II  sequence-specific DNA binding  positive regulation of transcription by RNA polymerase II  metal ion binding  
Ontology : EGO-EBInuclear chromatin  transcription regulatory region sequence-specific DNA binding  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  transcription coactivator activity  protein binding  nucleus  nucleoplasm  cytosol  regulation of transcription by RNA polymerase II  sequence-specific DNA binding  positive regulation of transcription by RNA polymerase II  metal ion binding  
NDEx NetworkSP4
Atlas of Cancer Signalling NetworkSP4
Wikipedia pathwaysSP4
Orthology - Evolution
OrthoDB6671
GeneTree (enSembl)ENSG00000105866
Phylogenetic Trees/Animal Genes : TreeFamSP4
HOGENOMQ02446
Homologs : HomoloGeneSP4
Homology/Alignments : Family Browser (UCSC)SP4
Gene fusions - Rearrangements
Fusion : MitelmanSP4/GPNMB [7p15.3/7p15.3]  
Fusion PortalSP4 7p15.3 GPNMB 7p15.3 GBM
Fusion : QuiverSP4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSP4 [hg38]
dbVarSP4
ClinVarSP4
MonarchSP4
1000_GenomesSP4 
Exome Variant ServerSP4
GNOMAD BrowserENSG00000105866
Varsome BrowserSP4
Genomic Variants (DGV)SP4 [DGVbeta]
DECIPHERSP4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSP4 
Mutations
ICGC Data PortalSP4 
TCGA Data PortalSP4 
Broad Tumor PortalSP4
OASIS PortalSP4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSP4  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DSP4
Mutations and Diseases : HGMDSP4
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SP4
DgiDB (Drug Gene Interaction Database)SP4
DoCM (Curated mutations)SP4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SP4 (select a term)
intoGenSP4
Cancer3DSP4(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600540   
Orphanet
DisGeNETSP4
MedgenSP4
Genetic Testing Registry SP4
NextProtQ02446 [Medical]
GENETestsSP4
Target ValidationSP4
Huge Navigator SP4 [HugePedia]
ClinGenSP4
Clinical trials, drugs, therapy
MyCancerGenomeSP4
Protein Interactions : CTD
Pharm GKB GenePA36046
PharosQ02446
Clinical trialSP4
Miscellaneous
canSAR (ICR)SP4 (select the gene name)
HarmonizomeSP4
DataMed IndexSP4
Probes
Litterature
PubMed52 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXSP4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Jan 1 18:38:49 CET 2021
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