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

SAA1 (serum amyloid A1)

Identity

Alias_namesSAA
Alias_symbol (synonym)PIG4
TP53I4
Other aliasSAA2
HGNC (Hugo) SAA1
LocusID (NCBI) 6288
Atlas_Id 46569
Location 11p15.1  [Link to chromosome band 11p15]
Location_base_pair Starts at 18266225 and ends at 18269976 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)		SAA1 (11p15.1) / APOA2 (1q23.3)SAA1 (11p15.1) / CRIP2 (14q32.33)SAA1 (11p15.1) / GYS2 (12p12.1)

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)SAA1   10513
Cards
Entrez_Gene (NCBI)SAA1  6288  serum amyloid A1
AliasesPIG4; SAA; SAA2; TP53I4
GeneCards (Weizmann)SAA1
Ensembl hg19 (Hinxton)ENSG00000173432 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000173432 [Gene_View]  chr11:18266225-18269976 [Contig_View]  SAA1 [Vega]
ICGC DataPortalENSG00000173432
TCGA cBioPortalSAA1
AceView (NCBI)SAA1
Genatlas (Paris)SAA1
WikiGenes6288
SOURCE (Princeton)SAA1
Genetics Home Reference (NIH)SAA1
Genomic and cartography
GoldenPath hg38 (UCSC)SAA1  -     chr11:18266225-18269976 +  11p15.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SAA1  -     11p15.1   [Description]    (hg19-Feb_2009)
EnsemblSAA1 - 11p15.1 [CytoView hg19]  SAA1 - 11p15.1 [CytoView hg38]
Mapping of homologs : NCBISAA1 [Mapview hg19]  SAA1 [Mapview hg38]
OMIM104750   
Gene and transcription
Genbank (Entrez)BC007022 BC105796 BE964588 BG533276 BG562565
RefSeq transcript (Entrez)NM_000331 NM_001178006 NM_199161
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SAA1
Cluster EST : UnigeneHs.731376 [ NCBI ]
CGAP (NCI)Hs.731376
Alternative Splicing GalleryENSG00000173432
Gene ExpressionSAA1 [ NCBI-GEO ]   SAA1 [ EBI - ARRAY_EXPRESS ]   SAA1 [ SEEK ]   SAA1 [ MEM ]
Gene Expression Viewer (FireBrowse)SAA1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6288
GTEX Portal (Tissue expression)SAA1
Protein : pattern, domain, 3D structure
UniProt/SwissProtP0DJI8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP0DJI8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP0DJI8
Splice isoforms : SwissVarP0DJI8
PhosPhoSitePlusP0DJI8
Domaine pattern : Prosite (Expaxy)SAA (PS00992)   
Domains : Interpro (EBI)Serum_amyloid_A   
Domain families : Pfam (Sanger)SAA (PF00277)   
Domain families : Pfam (NCBI)pfam00277   
Domain families : Smart (EMBL)SAA (SM00197)  
Conserved Domain (NCBI)SAA1
DMDM Disease mutations6288
Blocks (Seattle)SAA1
PDB (SRS)4IP8    4IP9   
PDB (PDBSum)4IP8    4IP9   
PDB (IMB)4IP8    4IP9   
PDB (RSDB)4IP8    4IP9   
Structural Biology KnowledgeBase4IP8    4IP9   
SCOP (Structural Classification of Proteins)4IP8    4IP9   
CATH (Classification of proteins structures)4IP8    4IP9   
SuperfamilyP0DJI8
Human Protein AtlasENSG00000173432
Peptide AtlasP0DJI8
HPRD00097
IPIIPI00552578   IPI00895943   IPI00979784   IPI00930533   IPI00006146   
Protein Interaction databases
DIP (DOE-UCLA)P0DJI8
IntAct (EBI)P0DJI8
FunCoupENSG00000173432
BioGRIDSAA1
STRING (EMBL)SAA1
ZODIACSAA1
Ontologies - Pathways
QuickGOP0DJI8
Ontology : AmiGOactivation of MAPK activity  G-protein coupled receptor binding  extracellular region  extracellular region  extracellular space  cytoplasmic microtubule  receptor-mediated endocytosis  acute-phase response  positive regulation of cytosolic calcium ion concentration  positive regulation of cytosolic calcium ion concentration  heparin binding  platelet activation  neutrophil chemotaxis  high-density lipoprotein particle  chemoattractant activity  cellular protein metabolic process  innate immune response  positive regulation of cell adhesion  positive regulation of cell adhesion  macrophage chemotaxis  lymphocyte chemotaxis  regulation of protein secretion  positive regulation of cytokine secretion  positive regulation of interleukin-1 secretion  negative regulation of inflammatory response  positive chemotaxis  extracellular exosome  endocytic vesicle lumen  
Ontology : EGO-EBIactivation of MAPK activity  G-protein coupled receptor binding  extracellular region  extracellular region  extracellular space  cytoplasmic microtubule  receptor-mediated endocytosis  acute-phase response  positive regulation of cytosolic calcium ion concentration  positive regulation of cytosolic calcium ion concentration  heparin binding  platelet activation  neutrophil chemotaxis  high-density lipoprotein particle  chemoattractant activity  cellular protein metabolic process  innate immune response  positive regulation of cell adhesion  positive regulation of cell adhesion  macrophage chemotaxis  lymphocyte chemotaxis  regulation of protein secretion  positive regulation of cytokine secretion  positive regulation of interleukin-1 secretion  negative regulation of inflammatory response  positive chemotaxis  extracellular exosome  endocytic vesicle lumen  
NDEx NetworkSAA1
Atlas of Cancer Signalling NetworkSAA1
Wikipedia pathwaysSAA1
Orthology - Evolution
OrthoDB6288
GeneTree (enSembl)ENSG00000173432
Phylogenetic Trees/Animal Genes : TreeFamSAA1
HOVERGENP0DJI8
HOGENOMP0DJI8
Homologs : HomoloGeneSAA1
Homology/Alignments : Family Browser (UCSC)SAA1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSAA1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SAA1
dbVarSAA1
ClinVarSAA1
1000_GenomesSAA1 
Exome Variant ServerSAA1
ExAC (Exome Aggregation Consortium)SAA1 (select the gene name)
Genetic variants : HAPMAP6288
Genomic Variants (DGV)SAA1 [DGVbeta]
DECIPHERSAA1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSAA1 
Mutations
ICGC Data PortalSAA1 
TCGA Data PortalSAA1 
Broad Tumor PortalSAA1
OASIS PortalSAA1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSAA1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSAA1
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 SAA1
DgiDB (Drug Gene Interaction Database)SAA1
DoCM (Curated mutations)SAA1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SAA1 (select a term)
intoGenSAA1
Cancer3DSAA1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM104750   
Orphanet11718   
MedgenSAA1
Genetic Testing Registry SAA1
NextProtP0DJI8 [Medical]
TSGene6288
GENETestsSAA1
Target ValidationSAA1
Huge Navigator SAA1 [HugePedia]
snp3D : Map Gene to Disease6288
BioCentury BCIQSAA1
ClinGenSAA1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6288
Chemical/Pharm GKB GenePA34921
Clinical trialSAA1
Miscellaneous
canSAR (ICR)SAA1 (select the gene name)
Probes
Litterature
PubMed225 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSAA1
EVEXSAA1
GoPubMedSAA1
iHOPSAA1
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 25 19:29:51 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.