Human Gene S100A6 (ENST00000368719.9_8) from GENCODE V47lift37
  Description: S100 calcium binding protein A6 (from RefSeq NM_014624.4)
Gencode Transcript: ENST00000368719.9_8
Gencode Gene: ENSG00000197956.10_10
Transcript (Including UTRs)
   Position: hg19 chr1:153,507,075-153,508,467 Size: 1,393 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg19 chr1:153,507,172-153,507,815 Size: 644 Coding Exon Count: 2 

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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 (chr1:153,507,075-153,508,467)mRNA (may differ from genome)Protein (90 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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-  Comments and Description Text from UniProtKB
  ID: S10A6_HUMAN
DESCRIPTION: RecName: Full=Protein S100-A6; AltName: Full=Calcyclin; AltName: Full=Growth factor-inducible protein 2A9; AltName: Full=MLN 4; AltName: Full=Prolactin receptor-associated protein; Short=PRA; AltName: Full=S100 calcium-binding protein A6;
FUNCTION: May function as calcium sensor and contribute to cellular calcium signaling (Potential). May function by interacting with other proteins and indirectly play a role in the reorganization of the actin cytoskeleton and in cell motility. Binds 2 calcium ions. Calcium binding is cooperative.
SUBUNIT: Homodimer; head to tail assembly of 2 subunits. Interacts with CACYBP (By similarity). Interacts with ANXA2 and ANXA11 (via N-terminus). Interacts with SUGT1. Interacts with TP53; has higher affinity for TP53 that is phosphorylated on its N-terminal domain, and lower affinity for TP53 that is phosphorylated on its C- terminal domain. Interacts with tropomyosin. Interacts with FKBP4. Interacts with CACYBP in a calcium-dependent manner (By similarity).
INTERACTION: P04271:S100B; NbExp=5; IntAct=EBI-352877, EBI-458391;
SUBCELLULAR LOCATION: Nucleus envelope. Cytoplasm. Cell membrane; Peripheral membrane protein; Cytoplasmic side.
INDUCTION: Preferentially expressed when quiescent fibroblasts are stimulated to proliferate. It is inducible by growth factors and overexpressed in acute myeloid leukemias.
PTM: The N-terminus is blocked.
MISCELLANEOUS: This protein co-purified with the prolactin receptor.
SIMILARITY: Belongs to the S-100 family.
SIMILARITY: Contains 2 EF-hand domains.

-  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: S100A6
Diseases sorted by gene-association score: endometrial cancer (4), pancreatic cancer (3), melanoma (3), cutaneous ganglioneuroma (2), capillariasis (2), papillary hidradenoma (1), skin sarcoma (1), amyotrophic lateral sclerosis 1 (1)

-  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: 1189.56 RPKM in Cells - Cultured fibroblasts
Total median expression: 20142.80 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -6.8064-0.106 Picture PostScript Text
3' UTR -18.6097-0.192 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
IPR011992 - EF-hand-like_dom
IPR018247 - EF_Hand_1_Ca_BS
IPR018249 - EF_HAND_2
IPR001751 - S100/CaBP-9k_CS
IPR013787 - S100_Ca-bd_sub

Pfam Domains:
PF01023 - S-100/ICaBP type calcium binding domain
PF13499 - EF-hand domain pair

SCOP Domains:
47473 - EF-hand

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1K8U - X-ray MuPIT 1K96 - X-ray MuPIT 1K9K - X-ray MuPIT 1K9P - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P06703
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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 DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005509 calcium ion binding
GO:0005515 protein binding
GO:0005523 tropomyosin binding
GO:0008270 zinc ion binding
GO:0015075 ion transmembrane transporter activity
GO:0042803 protein homodimerization activity
GO:0044548 S100 protein binding
GO:0046872 metal ion binding
GO:0048306 calcium-dependent protein binding

Biological Process:
GO:0007165 signal transduction
GO:0007409 axonogenesis
GO:0034220 ion transmembrane transport
GO:0048146 positive regulation of fibroblast proliferation

Cellular Component:
GO:0001726 ruffle
GO:0005576 extracellular region
GO:0005634 nucleus
GO:0005635 nuclear envelope
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0031234 extrinsic component of cytoplasmic side of plasma membrane
GO:0048471 perinuclear region of cytoplasm
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  BC001431 - Homo sapiens S100 calcium binding protein A6, mRNA (cDNA clone MGC:2187 IMAGE:3138609), complete cds.
BC009017 - Homo sapiens S100 calcium binding protein A6, mRNA (cDNA clone MGC:18233 IMAGE:4157026), complete cds.
LF383805 - JP 2014500723-A/191308: Polycomb-Associated Non-Coding RNAs.
LF352404 - JP 2014500723-A/159907: Polycomb-Associated Non-Coding RNAs.
JD304582 - Sequence 285606 from Patent EP1572962.
AK312088 - Homo sapiens cDNA, FLJ92369, highly similar to Homo sapiens S100 calcium binding protein A6 (calcyclin) (S100A6),mRNA.
KJ892081 - Synthetic construct Homo sapiens clone ccsbBroadEn_01475 S100A6 gene, encodes complete protein.
BT006965 - Homo sapiens S100 calcium binding protein A6 (calcyclin) mRNA, complete cds.
DQ894935 - Synthetic construct Homo sapiens clone IMAGE:100009395; FLH179601.01L; RZPDo839A06131D S100 calcium binding protein A6 (calcyclin) (S100A6) gene, encodes complete protein.
EU176296 - Synthetic construct Homo sapiens clone IMAGE:100006406; FLH179608.01X; RZPDo839A03251D S100 calcium binding protein A6 (S100A6) gene, encodes complete protein.
AB464698 - Synthetic construct DNA, clone: pF1KB8856, Homo sapiens S100A6 gene for S100 calcium binding protein A6, without stop codon, in Flexi system.
DL492325 - Novel nucleic acids.
DL490815 - Novel nucleic acids.
LF352402 - JP 2014500723-A/159905: Polycomb-Associated Non-Coding RNAs.
D28464 - Homo sapiens mRNA for calcyclin, 5'UTR region.
MA619382 - JP 2018138019-A/191308: Polycomb-Associated Non-Coding RNAs.
MA587981 - JP 2018138019-A/159907: Polycomb-Associated Non-Coding RNAs.
MA587979 - JP 2018138019-A/159905: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: CACY, D3DV39, ENST00000368719.1, ENST00000368719.2, ENST00000368719.3, ENST00000368719.4, ENST00000368719.5, ENST00000368719.6, ENST00000368719.7, ENST00000368719.8, NM_014624, P06703, Q5RHS4, S10A6_HUMAN, uc318gzt.1, uc318gzt.2
UCSC ID: ENST00000368719.9_8
RefSeq Accession: NM_014624.4
Protein: P06703 (aka S10A6_HUMAN or S106_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.