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    Shroom4 shroom family member 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 317391, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Shroom4provided by RGD
    Official Full Name
    shroom family member 4provided by RGD
    Primary source
    RGD:1563434
    See related
    Ensembl:ENSRNOG00000002959 AllianceGenome:RGD:1563434
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1563434
    Summary
    Predicted to enable actin filament binding activity and myosin II binding activity. Predicted to be involved in actin filament organization; brain development; and cognition. Predicted to be located in several cellular components, including actin cytoskeleton; basal plasma membrane; and focal adhesion. Predicted to be active in several cellular components, including adherens junction; apical junction complex; and apical plasma membrane. Human ortholog(s) of this gene implicated in Stocco Dos Santos type X-linked intellectual disability. Orthologous to human SHROOM4 (shroom family member 4). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Kidney (RPKM 228.9), Lung (RPKM 181.8) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    Xq12
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (18537371..18748665, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (15869065..16076850, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (16723360..16929829, complement)

    Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene diacylglycerol kinase kappa Neighboring gene cleavage and polyadenylation specific factor 4, pseudogene 1 Neighboring gene cysteine-rich protein 2 like 2 Neighboring gene bone morphogenetic protein 15

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Epilepsy and intellectual disability linked protein Shrm4 interaction with GABA(B)Rs shapes inhibitory neurotransmission. Zapata J, et al. Nat Commun, 2017 Mar 6. PMID 28262662, Free PMC Article
    2. Shroom4 (Kiaa1202) is an actin-associated protein implicated in cytoskeletal organization. Yoder M, et al. Cell Motil Cytoskeleton, 2007 Jan. PMID 17009331
    3. Disruptions of the novel KIAA1202 gene are associated with X-linked mental retardation. Hagens O, et al. Hum Genet, 2006 Jan. PMID 16249884
    4. Differential actin-dependent localization modulates the evolutionarily conserved activity of Shroom family proteins. Dietz ML, et al. J Biol Chem, 2006 Jul 21. PMID 16684770
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Shrm4 interaction with GABA-B receptors shapes inhibitory neurotransmission.
      Title: Epilepsy and intellectual disability linked protein Shrm4 interaction with GABA(B)Rs shapes inhibitory neurotransmission.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actin filament binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables actin filament binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables myosin II binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in actin filament organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within actin filament organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in brain development ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT involved_in cell morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cognition ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in actin cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in actin filament ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in adherens junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in apical junction complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in apical plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in apical plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in basal plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cortical actin cytoskeleton IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cortical actin cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasmic side of plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in focal adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in focal adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in stress fiber ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protein Shroom4

    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_001191730.1 → NP_001178659.1  protein Shroom4

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000021
      UniProtKB/TrEMBL
      A6KPC0, F1LVL5
      Related
      ENSRNOP00000003971.6, ENSRNOT00000003971.8
      Conserved Domains (2) summary
      cd00992
      Location:13 → 89
      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:1241 → 1479
      ASD2; Apx/Shroom domain ASD2

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086039.1 Reference GRCr8

      Range
      18537371..18748665 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039099796.2 → XP_038955724.1  protein Shroom4 isoform X1

      UniProtKB/TrEMBL
      A6KPC0
      Conserved Domains (2) summary
      smart00228
      Location:1 → 41
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      pfam08687
      Location:1204 → 1428
      ASD2; Apx/Shroom domain ASD2

    2. XM_017602065.3 → XP_017457554.1  protein Shroom4 isoform X1

      UniProtKB/TrEMBL
      A6KPC0
      Conserved Domains (2) summary
      smart00228
      Location:1 → 41
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      pfam08687
      Location:1204 → 1428
      ASD2; Apx/Shroom domain ASD2

    3. XM_006256763.5 → XP_006256825.1  protein Shroom4 isoform X2

      UniProtKB/TrEMBL
      A6KPC0
      Conserved Domains (1) summary
      pfam08687
      Location:1125 → 1363
      ASD2; Apx/Shroom domain ASD2
    Nucleotide Protein Strain
    Heading Accession and Version

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