Human Gene SFN (ENST00000339276.6_4) from GENCODE V47lift37
  Description: stratifin (from RefSeq NM_006142.5)
Gencode Transcript: ENST00000339276.6_4
Gencode Gene: ENSG00000175793.12_8
Transcript (Including UTRs)
   Position: hg19 chr1:27,189,640-27,190,947 Size: 1,308 Total Exon Count: 1 Strand: +
Coding Region
   Position: hg19 chr1:27,189,704-27,190,450 Size: 747 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:27,189,640-27,190,947)mRNA (may differ from genome)Protein (248 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: 1433S_HUMAN
DESCRIPTION: RecName: Full=14-3-3 protein sigma; AltName: Full=Epithelial cell marker protein 1; AltName: Full=Stratifin;
FUNCTION: Adapter protein implicated in the regulation of a large spectrum of both general and specialized signaling pathways. Binds to a large number of partners, usually by recognition of a phosphoserine or phosphothreonine motif. Binding generally results in the modulation of the activity of the binding partner. When bound to KRT17, regulates protein synthesis and epithelial cell growth by stimulating Akt/mTOR pathway (By similarity).
FUNCTION: p53-regulated inhibitor of G2/M progression.
SUBUNIT: Homodimer. Interacts with KRT17 and SAMSN1 (By similarity). Found in a complex with XPO7, EIF4A1, ARHGAP1, VPS26A, VPS29, VPS35 and SFN. Interacts with GAB2. Interacts with SRPK2. Interacts with COPS6. Interacts with RFWD2; this interaction leads to proteasomal degradation.
INTERACTION: P00519:ABL1; NbExp=2; IntAct=EBI-476295, EBI-375543; Q7L5N1:COPS6; NbExp=7; IntAct=EBI-476295, EBI-486838; Q14103-4:HNRNPD; NbExp=7; IntAct=EBI-476295, EBI-432545; O00444:PLK4; NbExp=2; IntAct=EBI-476295, EBI-746202; Q8NHY2:RFWD2; NbExp=5; IntAct=EBI-476295, EBI-1176214;
SUBCELLULAR LOCATION: Cytoplasm. Nucleus (By similarity). Secreted. Note=May be secreted by a non-classical secretory pathway.
TISSUE SPECIFICITY: Present mainly in tissues enriched in stratified squamous keratinizing epithelium.
SIMILARITY: Belongs to the 14-3-3 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: SFN
Diseases sorted by gene-association score: limbal stem cell deficiency (2), cocoon syndrome (2), breast cancer (2), colloid carcinoma of the pancreas (1), popliteal pterygium syndrome 1 (1), microphthalmia, isolated 1 (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 1305.32 RPKM in Esophagus - Mucosa
Total median expression: 3346.25 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -17.8064-0.278 Picture PostScript Text
3' UTR -192.00497-0.386 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
IPR000308 - 14-3-3
IPR023409 - 14-3-3_CS
IPR023410 - 14-3-3_domain

Pfam Domains:
PF00244 - 14-3-3 protein

SCOP Domains:
48445 - 14-3-3 protein
48613 - Heme oxygenase-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1YWT - X-ray MuPIT 1YZ5 - X-ray MuPIT 3IQJ - X-ray 3IQU - X-ray 3IQV - X-ray 3LW1 - X-ray MuPIT 3MHR - X-ray MuPIT 3O8I - X-ray MuPIT 3P1N - X-ray MuPIT 3P1O - X-ray MuPIT 3P1P - X-ray MuPIT 3P1Q - X-ray MuPIT 3P1R - X-ray MuPIT 3P1S - X-ray MuPIT 3SMK - X-ray MuPIT 3SML - X-ray MuPIT 3SMM - X-ray MuPIT 3SMN - X-ray MuPIT 3SMO - X-ray MuPIT 3SPR - X-ray MuPIT 3U9X - X-ray MuPIT 4DAT - X-ray MuPIT 4DAU - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P31947
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 DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0008426 protein kinase C inhibitor activity
GO:0019901 protein kinase binding
GO:0019904 protein domain specific binding
GO:0042802 identical protein binding
GO:0045296 cadherin binding
GO:0051219 phosphoprotein binding

Biological Process:
GO:0000079 regulation of cyclin-dependent protein serine/threonine kinase activity
GO:0001836 release of cytochrome c from mitochondria
GO:0003334 keratinocyte development
GO:0006469 negative regulation of protein kinase activity
GO:0006977 DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest
GO:0007165 signal transduction
GO:0008630 intrinsic apoptotic signaling pathway in response to DNA damage
GO:0010482 regulation of epidermal cell division
GO:0010839 negative regulation of keratinocyte proliferation
GO:0030216 keratinocyte differentiation
GO:0030307 positive regulation of cell growth
GO:0031424 keratinization
GO:0043154 negative regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0043588 skin development
GO:0045606 positive regulation of epidermal cell differentiation
GO:0046827 positive regulation of protein export from nucleus
GO:0051726 regulation of cell cycle
GO:0061024 membrane organization
GO:0061436 establishment of skin barrier
GO:0071901 negative regulation of protein serine/threonine kinase activity
GO:1900740 positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005829 cytosol
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  BC023552 - Homo sapiens stratifin, mRNA (cDNA clone MGC:19713 IMAGE:3534328), complete cds.
AF029082 - Homo sapiens 14-3-3 sigma protein mRNA, complete cds.
BC001550 - Homo sapiens stratifin, mRNA (cDNA clone MGC:5019 IMAGE:3457665), complete cds.
BC000329 - Homo sapiens stratifin, mRNA (cDNA clone MGC:8516 IMAGE:2822397), complete cds.
BC002995 - Homo sapiens stratifin, mRNA (cDNA clone MGC:3828 IMAGE:2822397), complete cds.
BC000995 - Homo sapiens stratifin, mRNA (cDNA clone MGC:5018 IMAGE:3445915), complete cds.
X57348 - H.sapiens mRNA (clone 9112).
JD118684 - Sequence 99708 from Patent EP1572962.
JD106718 - Sequence 87742 from Patent EP1572962.
JD124897 - Sequence 105921 from Patent EP1572962.
JD232475 - Sequence 213499 from Patent EP1572962.
AB464718 - Synthetic construct DNA, clone: pF1KB9811, Homo sapiens SFN gene for stratifin, without stop codon, in Flexi system.
M93010 - Human epithelial cell marker protein 1 (HMe1) mRNA, complete cds.
DQ894162 - Synthetic construct Homo sapiens clone IMAGE:100008622; FLH168263.01L; RZPDo839E0691D stratifin (SFN) gene, encodes complete protein.
CU674492 - Synthetic construct Homo sapiens gateway clone IMAGE:100016887 5' read SFN mRNA.
KJ896908 - Synthetic construct Homo sapiens clone ccsbBroadEn_06302 SFN gene, encodes complete protein.
KJ901461 - Synthetic construct Homo sapiens clone ccsbBroadEn_10855 SFN gene, encodes complete protein.
CR541926 - Homo sapiens full open reading frame cDNA clone RZPDo834H1133D for gene SFN, stratifin; complete cds, without stopcodon.
CR541905 - Homo sapiens full open reading frame cDNA clone RZPDo834E0233D for gene SFN, stratifin; complete cds, incl. stopcodon.
JD029205 - Sequence 10229 from Patent EP1572962.
JD128780 - Sequence 109804 from Patent EP1572962.
JD339284 - Sequence 320308 from Patent EP1572962.
JD481323 - Sequence 462347 from Patent EP1572962.
JD520822 - Sequence 501846 from Patent EP1572962.
JD099914 - Sequence 80938 from Patent EP1572962.
JD154049 - Sequence 135073 from Patent EP1572962.
JD439213 - Sequence 420237 from Patent EP1572962.
JD319906 - Sequence 300930 from Patent EP1572962.
JD119148 - Sequence 100172 from Patent EP1572962.
JD341479 - Sequence 322503 from Patent EP1572962.
JD212029 - Sequence 193053 from Patent EP1572962.
JD197156 - Sequence 178180 from Patent EP1572962.
JD154126 - Sequence 135150 from Patent EP1572962.
JD405407 - Sequence 386431 from Patent EP1572962.
JD455747 - Sequence 436771 from Patent EP1572962.
JD455748 - Sequence 436772 from Patent EP1572962.
JD533953 - Sequence 514977 from Patent EP1572962.
JD533954 - Sequence 514978 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_EfpPathway - Estrogen-responsive protein Efp controls cell cycle and breast tumors growth

Reactome (by CSHL, EBI, and GO)

Protein P31947 (Reactome details) participates in the following event(s):

R-HSA-6803890 SFN dimerizes
R-HSA-6803875 SFN dimer binds CDK1 and CCNB1
R-HSA-6803892 SFN dimer binds BAX
R-HSA-75016 Association of p-S216-CDC25C with 14-3-3 proteins
R-HSA-139899 Sequestration of BAD protein by 14-3-3
R-HSA-1445149 14-3-3 binds p-5S,T642-AS160 (TBC1D4)
R-HSA-1454689 14-3-3 Binds p-S237-TBC1D1
R-HSA-5632732 p-S939,T1462-TSC2 binding to 14-3-3 dimer is negatively regulated by DDIT4
R-HSA-5632738 DDIT4 binds 14-3-3 dimer
R-HSA-139906 Activation of BAD by calcineurin
R-HSA-6804114 TP53 Regulates Transcription of Genes Involved in G2 Cell Cycle Arrest
R-HSA-6791312 TP53 Regulates Transcription of Cell Cycle Genes
R-HSA-75035 Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex
R-HSA-5625740 RHO GTPases activate PKNs
R-HSA-111447 Activation of BAD and translocation to mitochondria
R-HSA-1445148 Translocation of GLUT4 to the plasma membrane
R-HSA-5628897 TP53 Regulates Metabolic Genes
R-HSA-3700989 Transcriptional Regulation by TP53
R-HSA-69473 G2/M DNA damage checkpoint
R-HSA-195258 RHO GTPase Effectors
R-HSA-114452 Activation of BH3-only proteins
R-HSA-199991 Membrane Trafficking
R-HSA-212436 Generic Transcription Pathway
R-HSA-69481 G2/M Checkpoints
R-HSA-194315 Signaling by Rho GTPases
R-HSA-109606 Intrinsic Pathway for Apoptosis
R-HSA-5653656 Vesicle-mediated transport
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-69620 Cell Cycle Checkpoints
R-HSA-162582 Signal Transduction
R-HSA-109581 Apoptosis
R-HSA-74160 Gene expression (Transcription)
R-HSA-1640170 Cell Cycle
R-HSA-5357801 Programmed Cell Death

-  Other Names for This Gene
  Alternate Gene Symbols: 1433S_HUMAN, ENST00000339276.1, ENST00000339276.2, ENST00000339276.3, ENST00000339276.4, ENST00000339276.5, HME1, NM_006142, P31947, Q6FH30, Q6FH51, Q96DH0, uc317vhg.1, uc317vhg.2
UCSC ID: ENST00000339276.6_4
RefSeq Accession: NM_006142.5
Protein: P31947 (aka 1433S_HUMAN or 143S_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.