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SDF4 (stromal cell derived factor 4)

Identity

Alias_symbol (synonym)Cab45
Other aliasSDF-4
HGNC (Hugo) SDF4
LocusID (NCBI) 51150
Atlas_Id 899
Location 1p36.33  [Link to chromosome band 1p36]
Location_base_pair Starts at 1216908 and ends at 1232067 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)
C1orf159 (1p36.33) / SDF4 (1p36.33)DST (6p12.1) / SDF4 (1p36.33)KAT6B (10q22.2) / SDF4 (1p36.33)
SDF4 (1p36.33) / MYC (8q24.21)SDF4 (1p36.33) / PLA2G15 (16q22.1)SDF4 (1p36.33) / SDF4 (1p36.33)
SDF4 (1p36.33) / WBSCR22 (7q11.23)C1orf159 1p36.33 / SDF4 1p36.33

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)SDF4   24188
Cards
Entrez_Gene (NCBI)SDF4  51150  stromal cell derived factor 4
AliasesCab45; SDF-4
GeneCards (Weizmann)SDF4
Ensembl hg19 (Hinxton)ENSG00000078808 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000078808 [Gene_View]  chr1:1216908-1232067 [Contig_View]  SDF4 [Vega]
ICGC DataPortalENSG00000078808
TCGA cBioPortalSDF4
AceView (NCBI)SDF4
Genatlas (Paris)SDF4
WikiGenes51150
SOURCE (Princeton)SDF4
Genetics Home Reference (NIH)SDF4
Genomic and cartography
GoldenPath hg38 (UCSC)SDF4  -     chr1:1216908-1232067 -  1p36.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SDF4  -     1p36.33   [Description]    (hg19-Feb_2009)
EnsemblSDF4 - 1p36.33 [CytoView hg19]  SDF4 - 1p36.33 [CytoView hg38]
Mapping of homologs : NCBISDF4 [Mapview hg19]  SDF4 [Mapview hg38]
OMIM614282   
Gene and transcription
Genbank (Entrez)AF132749 AF153686 AF178986 AK000717 AK027277
RefSeq transcript (Entrez)NM_016176 NM_016547
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SDF4
Cluster EST : UnigeneHs.42806 [ NCBI ]
CGAP (NCI)Hs.42806
Alternative Splicing GalleryENSG00000078808
Gene ExpressionSDF4 [ NCBI-GEO ]   SDF4 [ EBI - ARRAY_EXPRESS ]   SDF4 [ SEEK ]   SDF4 [ MEM ]
Gene Expression Viewer (FireBrowse)SDF4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51150
GTEX Portal (Tissue expression)SDF4
Human Protein AtlasENSG00000078808-SDF4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BRK5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9BRK5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BRK5
Splice isoforms : SwissVarQ9BRK5
PhosPhoSitePlusQ9BRK5
Domaine pattern : Prosite (Expaxy)EF_HAND_1 (PS00018)    EF_HAND_2 (PS50222)   
Domains : Interpro (EBI)EF-hand-dom_pair    EF_Hand_1_Ca_BS    EF_hand_dom   
Domain families : Pfam (Sanger)EF-hand_5 (PF13202)    EF-hand_7 (PF13499)   
Domain families : Pfam (NCBI)pfam13202    pfam13499   
Domain families : Smart (EMBL)EFh (SM00054)  
Conserved Domain (NCBI)SDF4
DMDM Disease mutations51150
Blocks (Seattle)SDF4
SuperfamilyQ9BRK5
Human Protein Atlas [tissue]ENSG00000078808-SDF4 [tissue]
Peptide AtlasQ9BRK5
HPRD13113
IPIIPI00106646   IPI00930709   IPI00930668   IPI00009794   IPI00930387   IPI00973831   IPI00514755   
Protein Interaction databases
DIP (DOE-UCLA)Q9BRK5
IntAct (EBI)Q9BRK5
FunCoupENSG00000078808
BioGRIDSDF4
STRING (EMBL)SDF4
ZODIACSDF4
Ontologies - Pathways
QuickGOQ9BRK5
Ontology : AmiGOcalcium ion binding  cytoplasm  late endosome  Golgi apparatus  Golgi lumen  plasma membrane  UV protection  membrane  calcium ion regulated exocytosis  cerebellum development  bleb  identical protein binding  fat cell differentiation  response to ethanol  extracellular exosome  zymogen granule exocytosis  
Ontology : EGO-EBIcalcium ion binding  cytoplasm  late endosome  Golgi apparatus  Golgi lumen  plasma membrane  UV protection  membrane  calcium ion regulated exocytosis  cerebellum development  bleb  identical protein binding  fat cell differentiation  response to ethanol  extracellular exosome  zymogen granule exocytosis  
NDEx NetworkSDF4
Atlas of Cancer Signalling NetworkSDF4
Wikipedia pathwaysSDF4
Orthology - Evolution
OrthoDB51150
GeneTree (enSembl)ENSG00000078808
Phylogenetic Trees/Animal Genes : TreeFamSDF4
HOVERGENQ9BRK5
HOGENOMQ9BRK5
Homologs : HomoloGeneSDF4
Homology/Alignments : Family Browser (UCSC)SDF4
Gene fusions - Rearrangements
Fusion : MitelmanC1orf159/SDF4 [1p36.33/1p36.33]  [t(1;1)(p36;p36)]  
Fusion: TCGAC1orf159 1p36.33 SDF4 1p36.33 LUAD
Fusion: Tumor Portal SDF4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSDF4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SDF4
dbVarSDF4
ClinVarSDF4
1000_GenomesSDF4 
Exome Variant ServerSDF4
ExAC (Exome Aggregation Consortium)ENSG00000078808
GNOMAD BrowserENSG00000078808
Genetic variants : HAPMAP51150
Genomic Variants (DGV)SDF4 [DGVbeta]
DECIPHERSDF4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSDF4 
Mutations
ICGC Data PortalSDF4 
TCGA Data PortalSDF4 
Broad Tumor PortalSDF4
OASIS PortalSDF4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSDF4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSDF4
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 SDF4
DgiDB (Drug Gene Interaction Database)SDF4
DoCM (Curated mutations)SDF4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SDF4 (select a term)
intoGenSDF4
Cancer3DSDF4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM614282   
Orphanet
MedgenSDF4
Genetic Testing Registry SDF4
NextProtQ9BRK5 [Medical]
TSGene51150
GENETestsSDF4
Target ValidationSDF4
Huge Navigator SDF4 [HugePedia]
snp3D : Map Gene to Disease51150
BioCentury BCIQSDF4
ClinGenSDF4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD51150
Chemical/Pharm GKB GenePA142670940
Clinical trialSDF4
Miscellaneous
canSAR (ICR)SDF4 (select the gene name)
Probes
Litterature
PubMed38 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSDF4
EVEXSDF4
GoPubMedSDF4
iHOPSDF4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Nov 9 13:10:03 CET 2017

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