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Stau1 staufen double-stranded RNA binding protein 1 [ Mus musculus (house mouse) ]

Gene ID: 20853, updated on 10-Jun-2024

Summary

Official Symbol
Stau1provided by MGI
Official Full Name
staufen double-stranded RNA binding protein 1provided by MGI
Primary source
MGI:MGI:1338864
See related
Ensembl:ENSMUSG00000039536 AllianceGenome:MGI:1338864
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Stau; 5830401L18Rik
Summary
Enables RNA binding activity. Involved in dendritic transport of messenger ribonucleoprotein complex. Acts upstream of or within intracellular mRNA localization. Located in cytoplasmic stress granule. Part of ribonucleoprotein complex. Is expressed in several structures, including alimentary system; central nervous system; early conceptus; gonad; and sensory organ. Orthologous to human STAU1 (staufen double-stranded RNA binding protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E14 (RPKM 16.8), adrenal adult (RPKM 16.1) and 28 other tissues See more
Orthologs
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Genomic context

See Stau1 in Genome Data Viewer
Location:
2 H3; 2 87.22 cM
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (166789469..166838253, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (166947549..166996315, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E6021 Neighboring gene ADP ribosylation factor guanine nucleotide exchange factor 2 Neighboring gene STARR-positive B cell enhancer ABC_E10161 Neighboring gene STARR-positive B cell enhancer ABC_E2654 Neighboring gene STARR-seq mESC enhancer starr_06416 Neighboring gene STARR-positive B cell enhancer ABC_E2655 Neighboring gene predicted gene, 31204 Neighboring gene chromosome segregation 1 like Neighboring gene STARR-positive B cell enhancer ABC_E9541 Neighboring gene STARR-positive B cell enhancer ABC_E2656 Neighboring gene GLE1 RNA export mediator pseudogene Neighboring gene DEAD box helicase 27

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 
  • Targeted (1)  1 citation

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables double-stranded RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables double-stranded RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein phosphatase 1 binding ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cell body ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasmic ribonucleoprotein granule ISO
Inferred from Sequence Orthology
more info
 
is_active_in cytoplasmic stress granule IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytoplasmic stress granule IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in dendrite IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in dendrite ISO
Inferred from Sequence Orthology
more info
 
located_in dendrite cytoplasm IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
 
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
 
part_of messenger ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in neuron projection IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in neuronal cell body IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in neuronal cell body ISO
Inferred from Sequence Orthology
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
part_of ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
double-stranded RNA-binding protein Staufen homolog 1
Names
staufen (RNA binding protein) homolog 1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001109905.2NP_001103375.1  double-stranded RNA-binding protein Staufen homolog 1 isoform 2

    See identical proteins and their annotated locations for NP_001103375.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1, resulting in an isoform (2) that is shorter than isoform 1.
    Source sequence(s)
    AK005002, AK139532, AL591711, BQ032760, BU757992
    Consensus CDS
    CCDS50800.1
    UniProtKB/TrEMBL
    Q3U8D3, Q9DBE7
    Related
    ENSMUSP00000104858.2, ENSMUST00000109235.8
    Conserved Domains (3) summary
    smart00358
    Location:98161
    DSRM; Double-stranded RNA binding motif
    cd00048
    Location:198264
    DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
    pfam16482
    Location:360469
    Staufen_C; Staufen C-terminal domain
  2. NM_001109906.2NP_001103376.1  double-stranded RNA-binding protein Staufen homolog 1 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AK139532, AK160979, AL591711, BQ032760, BU757992
    Consensus CDS
    CCDS50801.1
    UniProtKB/TrEMBL
    A2A5S3, Q3U8D3
    Related
    ENSMUSP00000104861.3, ENSMUST00000109238.9
    Conserved Domains (3) summary
    smart00358
    Location:98167
    DSRM; Double-stranded RNA binding motif
    cd00048
    Location:204270
    DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
    pfam16482
    Location:366475
    Staufen_C; Staufen C-terminal domain
  3. NM_001291160.1NP_001278089.1  double-stranded RNA-binding protein Staufen homolog 1 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate in-frame splice site in the 5' coding region, and contains an alternate exon that results in a shorter 3' coding region and an additional segment in the 3' UTR, compared to variant 1. The encoded isoform (4) is shorter at the C-terminus, compared to isoform 1.
    Source sequence(s)
    AK139532, AK151835, AL591711, BQ032760, BU757992
    Consensus CDS
    CCDS71197.1
    UniProtKB/TrEMBL
    A2A5R8, Q3U7A6
    Related
    ENSMUSP00000042626.6, ENSMUST00000049412.12
    Conserved Domains (3) summary
    pfam16482
    Location:360469
    Staufen_C; Staufen C-terminal domain
    cd19885
    Location:188273
    DSRM_STAU1_rpt4; fourth double-stranded RNA binding motif of double-stranded RNA-binding protein Staufen homolog 1 (Staufen 1) and similar proteins
    cl00054
    Location:95161
    DSRM_SF; double-stranded RNA binding motif (DSRM) superfamily
  4. NM_011490.4NP_035620.1  double-stranded RNA-binding protein Staufen homolog 1 isoform 3

    See identical proteins and their annotated locations for NP_035620.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses two alternate in-frame splice sites in the 5' coding region, compared to variant 1, resulting in an isoform (3) that is shorter than isoform 1.
    Source sequence(s)
    AK139532, AK145826, AK159781, AL591711, BQ032760, BU757992
    Consensus CDS
    CCDS17093.1
    UniProtKB/Swiss-Prot
    Q9Z108
    UniProtKB/TrEMBL
    Q3U8D3
    Related
    ENSMUSP00000104859.3, ENSMUST00000109236.9
    Conserved Domains (3) summary
    smart00358
    Location:98161
    DSRM; Double-stranded RNA binding motif
    cd00048
    Location:196262
    DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
    pfam16482
    Location:358467
    Staufen_C; Staufen C-terminal domain

RNA

  1. NR_111895.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) is shorter in the 5' region and lacks an internal segment in the 3' region, compared to variant 1. This variant is represented as non-coding because the use of the expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK139532, AK160979, AL591711, AY391773, BQ032760, BU757992

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    166789469..166838253 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036160105.1XP_036015998.1  double-stranded RNA-binding protein Staufen homolog 1 isoform X2

    UniProtKB/TrEMBL
    A2A5R8, Q3U7A6
    Conserved Domains (3) summary
    pfam16482
    Location:360469
    Staufen_C; Staufen C-terminal domain
    cd19885
    Location:188273
    DSRM_STAU1_rpt4; fourth double-stranded RNA binding motif of double-stranded RNA-binding protein Staufen homolog 1 (Staufen 1) and similar proteins
    cl00054
    Location:95161
    DSRM_SF; double-stranded RNA binding motif (DSRM) superfamily
  2. XM_006499071.3XP_006499134.1  double-stranded RNA-binding protein Staufen homolog 1 isoform X1

    See identical proteins and their annotated locations for XP_006499134.1

    UniProtKB/TrEMBL
    Q3U7A6
    Related
    ENSMUSP00000139039.2, ENSMUST00000184390.2
    Conserved Domains (3) summary
    pfam16482
    Location:366475
    Staufen_C; Staufen C-terminal domain
    cd19885
    Location:194279
    DSRM_STAU1_rpt4; fourth double-stranded RNA binding motif of double-stranded RNA-binding protein Staufen homolog 1 (Staufen 1) and similar proteins
    cl00054
    Location:95167
    DSRM_SF; double-stranded RNA binding motif (DSRM) superfamily
  3. XM_006499072.3XP_006499135.1  double-stranded RNA-binding protein Staufen homolog 1 isoform X1

    See identical proteins and their annotated locations for XP_006499135.1

    UniProtKB/TrEMBL
    Q3U7A6
    Conserved Domains (3) summary
    pfam16482
    Location:366475
    Staufen_C; Staufen C-terminal domain
    cd19885
    Location:194279
    DSRM_STAU1_rpt4; fourth double-stranded RNA binding motif of double-stranded RNA-binding protein Staufen homolog 1 (Staufen 1) and similar proteins
    cl00054
    Location:95167
    DSRM_SF; double-stranded RNA binding motif (DSRM) superfamily
  4. XM_030249042.1XP_030104902.1  double-stranded RNA-binding protein Staufen homolog 1 isoform X4

    UniProtKB/TrEMBL
    Q3U8D3
    Conserved Domains (3) summary
    pfam16482
    Location:311420
    Staufen_C; Staufen C-terminal domain
    cd19883
    Location:95161
    DSRM_STAU1_rpt3; third double-stranded RNA binding motif of double-stranded RNA-binding protein Staufen homolog 1 (Staufen 1) and similar proteins
    cl00054
    Location:170
    DSRM_SF; double-stranded RNA binding motif (DSRM) superfamily
  5. XM_011239406.1XP_011237708.1  double-stranded RNA-binding protein Staufen homolog 1 isoform X3

    UniProtKB/TrEMBL
    Q3U8D3
    Conserved Domains (2) summary
    pfam16482
    Location:317426
    Staufen_C; Staufen C-terminal domain
    cl00054
    Location:95167
    DSRM_SF; double-stranded RNA binding motif (DSRM) superfamily

RNA

  1. XR_004939216.1 RNA Sequence

  2. XR_004939214.1 RNA Sequence

  3. XR_004939215.1 RNA Sequence