Human Gene STN1 (ENST00000224950.8_8) from GENCODE V47lift37
  Description: STN1 subunit of CST complex (from RefSeq NM_024928.5)
Gencode Transcript: ENST00000224950.8_8
Gencode Gene: ENSG00000107960.12_13
Transcript (Including UTRs)
   Position: hg19 chr10:105,637,327-105,677,942 Size: 40,616 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr10:105,642,442-105,677,352 Size: 34,911 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:105,637,327-105,677,942)mRNA (may differ from genome)Protein (368 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsMalacardsMGI
OMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: STN1_HUMAN
DESCRIPTION: RecName: Full=CST complex subunit STN1; AltName: Full=Oligonucleotide/oligosaccharide-binding fold-containing protein 1; AltName: Full=Suppressor of cdc thirteen homolog;
FUNCTION: Component of the CST complex, a complex that binds to single-stranded DNA and is required to protect telomeres from DNA degradation. The CST complex binds single-stranded DNA with high affinity in a sequence-independent manner, while isolated subunits bind DNA with low affinity by themselves. In addition to telomere protection, the CST complex has probably a more general role in DNA metabolism at non-telomeric sites.
SUBUNIT: Component of the CST complex, composed of TEN1/C17orf106, CTC1/C17orf68 and STN1/OBFC1. Interacts with TEN1/C17orf106 and CTC1/C17orf68; the interaction is direct. Interacts with ACD/TPP1.
SUBCELLULAR LOCATION: Nucleus. Chromosome, telomere.
SIMILARITY: Belongs to the STN1 family.
SIMILARITY: Contains 1 OB DNA-binding domain.

-  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: STN1
Diseases sorted by gene-association score: cerebroretinal microangiopathy with calcifications and cysts 2* (1230), cerebroretinal microangiopathy with calcifications and cysts (21), pulmonary fibrosis, idiopathic* (9)
* = Manually curated disease association

+  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: 23.60 RPKM in Esophagus - Mucosa
Total median expression: 479.44 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 -64.70147-0.440 Picture PostScript Text
3' UTR -1601.805115-0.313 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
IPR014647 - CST_STN1
IPR015253 - DUF1879_CST_STN1
IPR012340 - NA-bd_OB-fold
IPR016027 - NA-bd_OB-fold-like
IPR004365 - NA-bd_OB_tRNA-helicase

Pfam Domains:
PF01336 - OB-fold nucleic acid binding domain
PF09170 - CST, Suppressor of cdc thirteen homolog, complex subunit STN1
PF10451 - Telomere regulation protein Stn1

SCOP Domains:
46785 - "Winged helix" DNA-binding domain
50249 - Nucleic acid-binding proteins

ModBase Predicted Comparative 3D Structure on Q9H668
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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003697 single-stranded DNA binding
GO:0005515 protein binding
GO:0042162 telomeric DNA binding
GO:0043047 single-stranded telomeric DNA binding

Biological Process:
GO:0000723 telomere maintenance
GO:0010833 telomere maintenance via telomere lengthening
GO:0016233 telomere capping
GO:0032211 negative regulation of telomere maintenance via telomerase
GO:0045740 positive regulation of DNA replication

Cellular Component:
GO:0000781 chromosome, telomeric region
GO:0000784 nuclear chromosome, telomeric region
GO:0001650 fibrillar center
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005694 chromosome
GO:0043231 intracellular membrane-bounded organelle
GO:0045111 intermediate filament cytoskeleton
GO:1990879 CST complex


-  Descriptions from all associated GenBank mRNAs
  BC017400 - Homo sapiens oligonucleotide/oligosaccharide-binding fold containing 1, mRNA (cDNA clone MGC:2472 IMAGE:3029792), complete cds.
AK026212 - Homo sapiens cDNA: FLJ22559 fis, clone HSI01591.
HQ448216 - Synthetic construct Homo sapiens clone IMAGE:100071617; CCSB005868_01 oligonucleotide/oligosaccharide-binding fold containing 1 (OBFC1) gene, encodes complete protein.
KJ899603 - Synthetic construct Homo sapiens clone ccsbBroadEn_08997 OBFC1 gene, encodes complete protein.
AK057720 - Homo sapiens cDNA FLJ33158 fis, clone UTERU2000418.
DQ585820 - Homo sapiens piRNA piR-52932, complete sequence.
DQ594202 - Homo sapiens piRNA piR-60314, complete sequence.
JD119217 - Sequence 100241 from Patent EP1572962.
JD178310 - Sequence 159334 from Patent EP1572962.
JD441065 - Sequence 422089 from Patent EP1572962.
JD336251 - Sequence 317275 from Patent EP1572962.
JD265214 - Sequence 246238 from Patent EP1572962.
JD558074 - Sequence 539098 from Patent EP1572962.
JD473001 - Sequence 454025 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: D3DR99, ENST00000224950.1, ENST00000224950.2, ENST00000224950.3, ENST00000224950.4, ENST00000224950.5, ENST00000224950.6, ENST00000224950.7, NM_024928, OBFC1, Q5TCZ0, Q9H668, STN1 , STN1_HUMAN, uc317dik.1, uc317dik.2
UCSC ID: ENST00000224950.8_8
RefSeq Accession: NM_024928.5
Protein: Q9H668 (aka STN1_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene STN1:
dkc (Dyskeratosis Congenita and Related Telomere Biology Disorders)

-  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.