Human Gene STAU1 (ENST00000371856.7_8) from GENCODE V47lift37
  Description: staufen double-stranded RNA binding protein 1, transcript variant T3 (from RefSeq NM_017453.4)
Gencode Transcript: ENST00000371856.7_8
Gencode Gene: ENSG00000124214.21_14
Transcript (Including UTRs)
   Position: hg19 chr20:47,729,876-47,804,871 Size: 74,996 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg19 chr20:47,731,415-47,782,738 Size: 51,324 Coding Exon Count: 12 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr20:47,729,876-47,804,871)mRNA (may differ from genome)Protein (577 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: STAU1_HUMAN
DESCRIPTION: RecName: Full=Double-stranded RNA-binding protein Staufen homolog 1;
FUNCTION: Binds double-stranded RNA (regardless of the sequence) and tubulin. May play a role in specific positioning of mRNAs at given sites in the cell by cross-linking cytoskeletal and RNA components, and in stimulating their translation at the site.
SUBUNIT: Binds tubulin. Binds with low affinity single-stranded RNA or DNA homopolymers. Interacts with CASC3 in an RNA-dependent manner (By similarity). Identified in a mRNP complex, at least composed of DHX9, DDX3X, ELAVL1, HNRNPU, IGF2BP1, ILF3, PABPC1, PCBP2, PTBP2, STAU1, STAU2, SYNCRIP and YBX1. Interacts with the influenza virus nonstructural protein NS1.
INTERACTION: P62424:RPL7A; NbExp=2; IntAct=EBI-358174, EBI-354172; P05388:RPLP0; NbExp=4; IntAct=EBI-358174, EBI-354101; Q92900:UPF1; NbExp=4; IntAct=EBI-358174, EBI-373471;
SUBCELLULAR LOCATION: Cytoplasm. Rough endoplasmic reticulum. Note=Localizes exclusively with the rough reticulum endoplasmic (RER).
TISSUE SPECIFICITY: Widely expressed. Expressed in brain, pancreas, heart, skeletal muscles, liver, lung, kidney and placenta.
DOMAIN: One of the DRDB could be involved in RER binding.
DOMAIN: The C-terminal contains the tubulin binding domain (TBD) (By similarity).
SIMILARITY: Contains 3 DRBM (double-stranded RNA-binding) 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


-  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: 38.73 RPKM in Thyroid
Total median expression: 1264.27 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 -97.20378-0.257 Picture PostScript Text
3' UTR -412.401539-0.268 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
IPR001159 - Ds-RNA-bd
IPR014720 - dsRNA-bd-like

Pfam Domains:
PF00035 - Double-stranded RNA binding motif
PF16482 - Staufen C-terminal domain

SCOP Domains:
54768 - dsRNA-binding domain-like

ModBase Predicted Comparative 3D Structure on O95793
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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 Gene Details  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0003725 double-stranded RNA binding
GO:0005515 protein binding
GO:0008157 protein phosphatase 1 binding

Biological Process:
GO:0034599 cellular response to oxidative stress
GO:0045070 positive regulation of viral genome replication
GO:0046726 positive regulation by virus of viral protein levels in host cell
GO:1900273 positive regulation of long-term synaptic potentiation

Cellular Component:
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005791 rough endoplasmic reticulum
GO:0005829 cytosol
GO:0005875 microtubule associated complex
GO:0005886 plasma membrane
GO:0010494 cytoplasmic stress granule
GO:0016020 membrane
GO:0030425 dendrite
GO:0036464 cytoplasmic ribonucleoprotein granule
GO:0043005 neuron projection
GO:0043025 neuronal cell body
GO:0044297 cell body
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AJ132258 - Homo sapiens mRNA for staufen protein, partial.
LF383775 - JP 2014500723-A/191278: Polycomb-Associated Non-Coding RNAs.
AK091405 - Homo sapiens cDNA FLJ34086 fis, clone FCBBF3005320, highly similar to Double-stranded RNA-binding protein Staufen homolog 1.
AY529074 - Homo sapiens staufen protein T5 variant mRNA, complete cds; alternatively spliced.
AY546099 - Homo sapiens staufen protein T4 variant mRNA, complete cds; alternatively spliced.
BC000830 - Homo sapiens staufen, RNA binding protein, homolog 1 (Drosophila), mRNA (cDNA clone IMAGE:3455258).
BC050432 - Homo sapiens staufen, RNA binding protein, homolog 1 (Drosophila), mRNA (cDNA clone MGC:54160 IMAGE:6047265), complete cds.
AK025519 - Homo sapiens cDNA: FLJ21866 fis, clone HEP02379, highly similar to AF061938 Homo sapiens staufen protein (STAU) mRNA.
BC095397 - Homo sapiens staufen, RNA binding protein, homolog 1 (Drosophila), mRNA (cDNA clone MGC:110867 IMAGE:30528051), complete cds.
AF061938 - Homo sapiens staufen protein (STAU) mRNA, alternatively spliced, complete cds.
AF061939 - Homo sapiens staufen protein (STAU) mRNA, alternatively spliced, complete cds.
AF061940 - Homo sapiens staufen protein (STAU) mRNA, alternatively spliced, complete cds.
AF061941 - Homo sapiens staufen protein (STAU) mRNA, alternatively spliced, complete cds.
JD057460 - Sequence 38484 from Patent EP1572962.
JD090982 - Sequence 72006 from Patent EP1572962.
JD130422 - Sequence 111446 from Patent EP1572962.
JD376638 - Sequence 357662 from Patent EP1572962.
JD239196 - Sequence 220220 from Patent EP1572962.
JD297429 - Sequence 278453 from Patent EP1572962.
JD267641 - Sequence 248665 from Patent EP1572962.
JD114018 - Sequence 95042 from Patent EP1572962.
JD303696 - Sequence 284720 from Patent EP1572962.
AL136601 - Homo sapiens mRNA; cDNA DKFZp564J1516 (from clone DKFZp564J1516).
JD171237 - Sequence 152261 from Patent EP1572962.
JD514586 - Sequence 495610 from Patent EP1572962.
JC506990 - Sequence 358 from Patent EP2733220.
JC738102 - Sequence 358 from Patent WO2014075939.
JC506085 - Sequence 104 from Patent EP2733219.
JC506207 - Sequence 226 from Patent EP2733219.
JC506752 - Sequence 120 from Patent EP2733220.
JC737509 - Sequence 104 from Patent WO2014075911.
JC737631 - Sequence 226 from Patent WO2014075911.
JC737864 - Sequence 120 from Patent WO2014075939.
JD296623 - Sequence 277647 from Patent EP1572962.
JD042134 - Sequence 23158 from Patent EP1572962.
JD559817 - Sequence 540841 from Patent EP1572962.
JD345256 - Sequence 326280 from Patent EP1572962.
JD302169 - Sequence 283193 from Patent EP1572962.
AK292859 - Homo sapiens cDNA FLJ77242 complete cds, highly similar to Homo sapiens staufen, RNA binding protein (STAU), transcript variant T4, mRNA.
JD139683 - Sequence 120707 from Patent EP1572962.
AK298372 - Homo sapiens cDNA FLJ57073 complete cds, highly similar to Double-stranded RNA-binding protein Staufenhomolog 1.
AB209561 - Homo sapiens mRNA for staufen isoform b variant protein.
JD476276 - Sequence 457300 from Patent EP1572962.
JD142605 - Sequence 123629 from Patent EP1572962.
JD138079 - Sequence 119103 from Patent EP1572962.
JD306108 - Sequence 287132 from Patent EP1572962.
AK291487 - Homo sapiens cDNA FLJ75871 complete cds, highly similar to Homo sapiens staufen, RNA binding protein (STAU), transcript variant T3, mRNA.
EU832501 - Synthetic construct Homo sapiens clone HAIB:100067530; DKFZo008F0829 staufen, RNA binding protein, homolog 1 (Drosophila) protein (STAU1) gene, encodes complete protein.
KJ892218 - Synthetic construct Homo sapiens clone ccsbBroadEn_01612 STAU1 gene, encodes complete protein.
EU832582 - Synthetic construct Homo sapiens clone HAIB:100067611; DKFZo004F0830 staufen, RNA binding protein, homolog 1 (Drosophila) protein (STAU1) gene, encodes complete protein.
AB384977 - Synthetic construct DNA, clone: pF1KB4688, Homo sapiens STAU1 gene for double-stranded RNA-binding protein Staufen homolog 1, complete cds, without stop codon, in Flexi system.
LF350670 - JP 2014500723-A/158173: Polycomb-Associated Non-Coding RNAs.
LF350672 - JP 2014500723-A/158175: Polycomb-Associated Non-Coding RNAs.
LF350673 - JP 2014500723-A/158176: Polycomb-Associated Non-Coding RNAs.
LF350674 - JP 2014500723-A/158177: Polycomb-Associated Non-Coding RNAs.
CU690676 - Synthetic construct Homo sapiens gateway clone IMAGE:100021462 5' read STAU1 mRNA.
JD437389 - Sequence 418413 from Patent EP1572962.
JD086222 - Sequence 67246 from Patent EP1572962.
LF350675 - JP 2014500723-A/158178: Polycomb-Associated Non-Coding RNAs.
BC001893 - Homo sapiens staufen, RNA binding protein, homolog 1 (Drosophila), mRNA (cDNA clone IMAGE:3546604).
BC010169 - Homo sapiens staufen, RNA binding protein, homolog 1 (Drosophila), mRNA (cDNA clone IMAGE:3546533), partial cds.
BC007532 - Homo sapiens staufen, RNA binding protein, homolog 1 (Drosophila), mRNA (cDNA clone IMAGE:2960593), with apparent retained intron.
AK057739 - Homo sapiens cDNA FLJ25010 fis, clone CBL01113, highly similar to Homo sapiens staufen protein (STAU) mRNA.
LF350676 - JP 2014500723-A/158179: Polycomb-Associated Non-Coding RNAs.
LF350677 - JP 2014500723-A/158180: Polycomb-Associated Non-Coding RNAs.
LF350678 - JP 2014500723-A/158181: Polycomb-Associated Non-Coding RNAs.
LF350679 - JP 2014500723-A/158182: Polycomb-Associated Non-Coding RNAs.
DQ586008 - Homo sapiens piRNA piR-53120, complete sequence.
JD160421 - Sequence 141445 from Patent EP1572962.
JD109986 - Sequence 91010 from Patent EP1572962.
JD467613 - Sequence 448637 from Patent EP1572962.
BC017275 - Homo sapiens cDNA clone IMAGE:4842907, partial cds.
JD316124 - Sequence 297148 from Patent EP1572962.
JD503566 - Sequence 484590 from Patent EP1572962.
JD297996 - Sequence 279020 from Patent EP1572962.
JD209245 - Sequence 190269 from Patent EP1572962.
MA619352 - JP 2018138019-A/191278: Polycomb-Associated Non-Coding RNAs.
MA586247 - JP 2018138019-A/158173: Polycomb-Associated Non-Coding RNAs.
MA586249 - JP 2018138019-A/158175: Polycomb-Associated Non-Coding RNAs.
MA586250 - JP 2018138019-A/158176: Polycomb-Associated Non-Coding RNAs.
MA586251 - JP 2018138019-A/158177: Polycomb-Associated Non-Coding RNAs.
MA586252 - JP 2018138019-A/158178: Polycomb-Associated Non-Coding RNAs.
MA586253 - JP 2018138019-A/158179: Polycomb-Associated Non-Coding RNAs.
MA586254 - JP 2018138019-A/158180: Polycomb-Associated Non-Coding RNAs.
MA586255 - JP 2018138019-A/158181: Polycomb-Associated Non-Coding RNAs.
MA586256 - JP 2018138019-A/158182: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K9Z4, E1P5Y1, E1P608, ENST00000371856.1, ENST00000371856.2, ENST00000371856.3, ENST00000371856.4, ENST00000371856.5, ENST00000371856.6, NM_017453, O95793, Q5JW29, Q6GTM4, Q9H5B4, Q9H5B5, Q9Y3Q2, STAU, STAU1_HUMAN, uc318jls.1, uc318jls.2
UCSC ID: ENST00000371856.7_8
RefSeq Accession: NM_017453.4
Protein: O95793 (aka STAU1_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.