Human Gene SAA2 (ENST00000256733.9_7) from GENCODE V47lift37
  Description: serum amyloid A2, transcript variant 1 (from RefSeq NM_030754.5)
Gencode Transcript: ENST00000256733.9_7
Gencode Gene: ENSG00000134339.9_11
Transcript (Including UTRs)
   Position: hg19 chr11:18,266,787-18,270,215 Size: 3,429 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr11:18,266,924-18,269,558 Size: 2,635 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:18,266,787-18,270,215)mRNA (may differ from genome)Protein (122 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MalacardsMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SAA2_HUMAN
DESCRIPTION: RecName: Full=Serum amyloid A-2 protein; Short=SAA2; Flags: Precursor;
FUNCTION: Major acute phase reactant. Apolipoprotein of the HDL complex.
SUBCELLULAR LOCATION: Secreted.
TISSUE SPECIFICITY: Expressed by the liver; secreted in plasma.
INDUCTION: Upon cytokine stimulation.
PTM: This protein is the precursor of amyloid protein A, which is formed by the removal of approximately 24 residues from the C- terminal end.
POLYMORPHISM: At least 2 different SAA2 alleles have been described: SAA2.1 (SAA2alpha) and SAA2.2 (SAA2beta). We use here the revised nomenclature described in PubMed:10211414. The sequence shown is that of SAA2.2.
DISEASE: Note=Reactive, secondary amyloidosis is characterized by the extracellular accumulation in various tissues of the SAA2 protein. These deposits are highly insoluble and resistant to proteolysis; they disrupt tissue structure and compromise function.
SIMILARITY: Belongs to the SAA family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: SAA2
Diseases sorted by gene-association score: amyloidosis aa (14), amyloidosis (12), amyloidosis, familial visceral (6)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 1290.44 RPKM in Liver
Total median expression: 1552.63 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -16.6070-0.237 Picture PostScript Text
3' UTR -43.20137-0.315 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000096 - Serum_amyloid_A

Pfam Domains:
PF00277 - Serum amyloid A protein

ModBase Predicted Comparative 3D Structure on P0DJI9
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0042056 chemoattractant activity

Biological Process:
GO:0006953 acute-phase response
GO:0050918 positive chemotaxis
GO:0060326 cell chemotaxis

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0034364 high-density lipoprotein particle
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AK307163 - Homo sapiens cDNA, FLJ97111.
X51440 - Human mRNA for serum amyloid A protein partial, clone pAS2.
X51445 - Human mRNA for serum amyloid A (SAA) protein partial, clone pAS8.
M26152 - Homo sapiens serum amyloid A (SAA) mRNA, complete cds.
BC020795 - Homo sapiens serum amyloid A2, mRNA (cDNA clone MGC:23693 IMAGE:4767650), complete cds.
JD228121 - Sequence 209145 from Patent EP1572962.
JD025706 - Sequence 6730 from Patent EP1572962.
JD028331 - Sequence 9355 from Patent EP1572962.
JD133373 - Sequence 114397 from Patent EP1572962.
HQ447679 - Synthetic construct Homo sapiens clone IMAGE:100071120; CCSB013116_02 serum amyloid A2 (SAA2) gene, encodes complete protein.
KJ897515 - Synthetic construct Homo sapiens clone ccsbBroadEn_06909 SAA2 gene, encodes complete protein.
M23699 - Homo sapiens serum amyloid A2-alpha (SAA2) mRNA, complete cds.
M23700 - Homo sapiens serum amyloid A2-beta (SAA2) mRNA, complete cds.
JD054287 - Sequence 35311 from Patent EP1572962.
X51444 - Human mRNA for serum amyloid A (SAA) protein partial, clone pAS6.
BC058008 - Homo sapiens cDNA clone IMAGE:4716555, with apparent retained intron.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000256733.1, ENST00000256733.2, ENST00000256733.3, ENST00000256733.4, ENST00000256733.5, ENST00000256733.6, ENST00000256733.7, ENST00000256733.8, G3XAK9, NM_030754, P02735, P02736, P02737, P0DJI9, Q16730, Q16834, Q16835, Q16879, Q3KRB3, Q6FG67, Q96QN0, Q9UCK9, Q9UCL0, SAA2 , SAA2_HUMAN, uc317fwd.1, uc317fwd.2
UCSC ID: ENST00000256733.9_7
RefSeq Accession: NM_030754.5
Protein: P0DJI9 (aka SAA2_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.