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    Shroom3 shroom family member 3 [ Mus musculus (house mouse) ]

    Gene ID: 27428, updated on 12-May-2024

    Summary

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    Official Symbol
    Shroom3provided by MGI
    Official Full Name
    shroom family member 3provided by MGI
    Primary source
    MGI:MGI:1351655
    See related
    Ensembl:ENSMUSG00000029381 AllianceGenome:MGI:1351655
    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
    Shrm; Shrm3; D5Ertd287e
    Summary
    Enables actin binding activity. Acts upstream of or within several processes, including columnar/cuboidal epithelial cell development; neural tube closure; and regulation of cell shape. Located in several cellular components, including adherens junction; apical junction complex; and apical plasma membrane. Is expressed in several structures, including central nervous system; gut; paraxial mesenchyme; sensory organ; and skeletal musculature. Orthologous to human SHROOM3 (shroom family member 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in colon adult (RPKM 39.5), small intestine adult (RPKM 32.7) and 15 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Shroom3 in Genome Data Viewer
    Location:
    5 E2; 5 47.29 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (92831294..93113618)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (92683435..92965759)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene VISTA enhancer mm187 Neighboring gene coiled-coil domain containing 158 Neighboring gene starch binding domain 1 Neighboring gene STARR-seq mESC enhancer starr_13649 Neighboring gene STARR-seq mESC enhancer starr_13650 Neighboring gene STARR-seq mESC enhancer starr_13651 Neighboring gene STARR-seq mESC enhancer starr_13653 Neighboring gene microRNA 1961 Neighboring gene STARR-seq mESC enhancer starr_13654 Neighboring gene STARR-seq mESC enhancer starr_13657 Neighboring gene STARR-seq mESC enhancer starr_13658 Neighboring gene VISTA enhancer mm397 Neighboring gene predicted gene, 36764 Neighboring gene predicted gene, 25521 Neighboring gene ribosomal protein L9 pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Shroom3, a Gene Associated with CKD, Modulates Epithelial Recovery after AKI. Li A, et al. Kidney360, 2022 Jan 27. PMID 35368578, Free PMC Article
    2. Lulu regulates Shroom-induced apical constriction during neural tube closure. Chu CW, et al. PLoS One, 2013. PMID 24282618, Free PMC Article
    3. A kinome screen reveals that Nemo-like kinase is a key suppressor of hepatic gluconeogenesis. Ji YX, et al. Cell Metab, 2021 Jun 1. PMID 33951476
    4. SHROOM3, the gene associated with chronic kidney disease, affects the podocyte structure. Matsuura R, et al. Sci Rep, 2020 Dec 3. PMID 33273487, Free PMC Article
    5. The interaction between Shroom3 and Rho-kinase is required for neural tube morphogenesis in mice. Das D, et al. Biol Open, 2014 Aug 29. PMID 25171888, Free PMC Article

    See all (61) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Shroom3, a Gene Associated with CKD, Modulates Epithelial Recovery after AKI.
      Title: Shroom3, a Gene Associated with CKD, Modulates Epithelial Recovery after AKI.
    2. SHROOM3, the gene associated with chronic kidney disease, affects the podocyte structure.
      Title: SHROOM3, the gene associated with chronic kidney disease, affects the podocyte structure.
    3. SHROOM3 is downstream of the planar cell polarity pathway and loss-of-function results in congenital heart defects.
      Title: SHROOM3 is downstream of the planar cell polarity pathway and loss-of-function results in congenital heart defects.
    4. Shroom3 has a role in apical constriction during lens pit morphogenesis and is recruited in a pathway involving p120-catenin
      Title: p120-catenin-dependent junctional recruitment of Shroom3 is required for apical constriction during lens pit morphogenesis.
    5. findings reveal that Lulu is essential for Shroom3-dependent apical constriction during vertebrate neural tube closure
      Title: Lulu regulates Shroom-induced apical constriction during neural tube closure.
    6. Shroom3 and N-cadherin function cooperatively downstream of Pitx2 to directly regulate cell shape changes necessary for early gut tube morphogenesis
      Title: Shroom3 and a Pitx2-N-cadherin pathway function cooperatively to generate asymmetric cell shape changes during gut morphogenesis.
    7. Scaffold protein POSH, in association with Shroom3 and mixed lineage kinase LZK, relays axon outgrowth inhibition downstream of NogoA and PirB proteins.
      Title: POSH is an intracellular signal transducer for the axon outgrowth inhibitor Nogo66.
    8. expression of Shroom3 is dependent on the crucial lens-induction transcription factor Pax6
      Title: Pax6-dependent Shroom3 expression regulates apical constriction during lens placode invagination.
    9. In the invaginating neural plate/tube, Shroom3 colocalized with ROCKs at the apical junctions; Shroom3 depletion or RII-C1 expression in the tube removed these apically localized ROCKs, and concomitantly blocked neural tube closure.
      Title: Shroom3-mediated recruitment of Rho kinases to the apical cell junctions regulates epithelial and neuroepithelial planar remodeling.
    10. Shroom likely facilitates neural tube closure by regulating cell shape changes via the apical positioning of an actomyosin network in the neurepithelium.
      Title: Shroom regulates epithelial cell shape via the apical positioning of an actomyosin network.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Chemically induced (ENU) (1) 
    • Endonuclease-mediated (4) 
    • Gene trapped (1)  1 citation

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables actin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables actin filament binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within actin cytoskeleton organization IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in actin filament organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within columnar/cuboidal epithelial cell development IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within neural tube closure IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within pattern specification process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of cell shape IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in adherens junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in adherens junction IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in anchoring junction IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in apical junction complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in apical junction complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in apical part of cell IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in apical plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in apical plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cortical actin cytoskeleton IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoskeleton IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in microtubule IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein Shroom3

    NCBI Reference Sequences (RefSeq)

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    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_001077595.2 → NP_001071063.1  protein Shroom3 isoform 2

      See identical proteins and their annotated locations for NP_001071063.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. Variants 2 and 3 encode the same isoform (2).
      Source sequence(s)
      AK147493, AK164918, BM942679, CJ103792
      Consensus CDS
      CCDS39155.1
      UniProtKB/Swiss-Prot
      Q3TNX1, Q6ZPP9, Q99L16, Q9QXM9, Q9QXN0
      UniProtKB/TrEMBL
      A0A0R4J1H8
      Related
      ENSMUSP00000108677.3, ENSMUST00000113054.9
      Conserved Domains (3) summary
      PHA03247
      Location:562 → 959
      PHA03247; large tegument protein UL36; Provisional
      pfam08687
      Location:1480 → 1764
      ASD2; Apx/Shroom domain ASD2
      pfam08688
      Location:707 → 881
      ASD1; Apx/Shroom domain ASD1

    2. NM_001077596.2 → NP_001071064.1  protein Shroom3 isoform 2

      See identical proteins and their annotated locations for NP_001071064.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. Variants 2 and 3 encode the same isoform (2).
      Source sequence(s)
      AK147493, BM942679, CJ045556
      Consensus CDS
      CCDS39155.1
      UniProtKB/Swiss-Prot
      Q3TNX1, Q6ZPP9, Q99L16, Q9QXM9, Q9QXN0
      UniProtKB/TrEMBL
      A0A0R4J1H8
      Related
      ENSMUSP00000108674.3, ENSMUST00000113051.9
      Conserved Domains (3) summary
      PHA03247
      Location:562 → 959
      PHA03247; large tegument protein UL36; Provisional
      pfam08687
      Location:1480 → 1764
      ASD2; Apx/Shroom domain ASD2
      pfam08688
      Location:707 → 881
      ASD1; Apx/Shroom domain ASD1

    3. NM_015756.2 → NP_056571.2  protein Shroom3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC124560, AC125233, AK147493, BM942679
      Consensus CDS
      CCDS39154.1
      UniProtKB/Swiss-Prot
      Q3TNX1, Q6ZPP9, Q99L16, Q9QXM9, Q9QXN0
      UniProtKB/TrEMBL
      E9QMY5
      Related
      ENSMUSP00000108678.3, ENSMUST00000113055.9
      Conserved Domains (3) summary
      cd00992
      Location:32 → 106
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      pfam08687
      Location:1655 → 1939
      ASD2; Apx/Shroom domain ASD2
      pfam08688
      Location:882 → 1056
      ASD1; Apx/Shroom domain ASD1

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      92831294..93113618
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006534966.5 → XP_006535029.1  protein Shroom3 isoform X1

      UniProtKB/Swiss-Prot
      Q3TNX1, Q6ZPP9, Q99L16, Q9QXM9, Q9QXN0
      UniProtKB/TrEMBL
      A0A286YDQ8
      Related
      ENSMUSP00000153516.2, ENSMUST00000225438.2
      Conserved Domains (3) summary
      PHA03247
      Location:656 → 1053
      PHA03247; large tegument protein UL36; Provisional
      pfam08687
      Location:1574 → 1858
      ASD2; Apx/Shroom domain ASD2
      pfam08688
      Location:801 → 975
      ASD1; Apx/Shroom domain ASD1

    2. XM_006534968.4 → XP_006535031.1  protein Shroom3 isoform X2

      See identical proteins and their annotated locations for XP_006535031.1

      UniProtKB/Swiss-Prot
      Q3TNX1, Q6ZPP9, Q99L16, Q9QXM9, Q9QXN0
      UniProtKB/TrEMBL
      A0A0R4J1H8
      Conserved Domains (3) summary
      PHA03247
      Location:562 → 959
      PHA03247; large tegument protein UL36; Provisional
      pfam08687
      Location:1480 → 1764
      ASD2; Apx/Shroom domain ASD2
      pfam08688
      Location:707 → 881
      ASD1; Apx/Shroom domain ASD1
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9QXN0.2 GenPept UniProtKB/Swiss-Prot:Q9QXN0

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
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