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

Gene ID: 27428, updated on 2-Nov-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; heart; paraxial mesenchyme; and sensory organ. Orthologous to human SHROOM3 (shroom family member 3). [provided by Alliance of Genome Resources, Nov 2024]
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 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. 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
  4. 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
  5. In toto live imaging of mouse morphogenesis and new insights into neural tube closure. Massarwa R, et al. Development, 2013 Jan 1. PMID 23175632, Free PMC Article

See all (62) 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
  
enables actin filament binding IEA
Inferred from Electronic Annotation
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
  
involved_in apical protein localization ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in cell morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in cellular pigment accumulation ISS
Inferred from Sequence or Structural Similarity
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 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 
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 microtubule 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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