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Shroom3 shroom family member 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 305230, updated on 4-Jan-2025

Summary

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Official Symbol
Shroom3provided by RGD
Official Full Name
shroom family member 3provided by RGD
Primary source
RGD:1310470
See related
EnsemblRapid:ENSRNOG00000002208 AllianceGenome:RGD:1310470
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
Shrm; RGD1310470
Summary
Predicted to enable actin filament binding activity. Predicted to be involved in actin filament organization. Predicted to act upstream of or within several processes, including columnar/cuboidal epithelial cell development; neural tube closure; and regulation of cell shape. Predicted to be located in apical part of cell and cytoskeleton. Predicted to be active in several cellular components, including adherens junction; apical junction complex; and apical plasma membrane. Orthologous to human SHROOM3 (shroom family member 3). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Lung (RPKM 39.9), Heart (RPKM 35.1) and 6 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Shroom3 in Genome Data Viewer
Location:
14p22
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (15383769..15681158, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (15099415..15396832, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (16622767..16903265, complement)

Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134481898 Neighboring gene uncharacterized LOC134481829 Neighboring gene 60S ribosomal protein L12 pseudogene Neighboring gene uncharacterized LOC108352720 Neighboring gene large ribosomal subunit protein uL30m-like Neighboring gene uncharacterized LOC134481722 Neighboring gene uncharacterized LOC120096575 Neighboring gene coiled-coil domain containing 158

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. Shroom3 contributes to the maintenance of the glomerular filtration barrier integrity. Yeo NC, et al. Genome Res, 2015 Jan. PMID 25273069, Free PMC Article
  2. Shroom regulates epithelial cell shape via the apical positioning of an actomyosin network. Hildebrand JD. J Cell Sci, 2005 Nov 15. PMID 16249236
  3. Shroom, a PDZ domain-containing actin-binding protein, is required for neural tube morphogenesis in mice. Hildebrand JD, et al. Cell, 1999 Nov 24. PMID 10589677
  4. Loss of cell polarity causes severe brain dysplasia in Lgl1 knockout mice. Klezovitch O, et al. Genes Dev, 2004 Mar 1. PMID 15037549, Free PMC Article
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables actin binding ISO
Inferred from Sequence Orthology
more info
  
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 ISO
Inferred from Sequence Orthology
more info
  
involved_in actin filament organization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in biological_process ND
No biological Data available
more info
  
acts_upstream_of_or_within columnar/cuboidal epithelial cell development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within neural tube closure ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within pattern specification process ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within regulation of cell shape ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in adherens junction ISO
Inferred from Sequence Orthology
more info
  
is_active_in apical junction complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in apical junction complex ISO
Inferred from Sequence Orthology
more info
  
located_in apical part of cell ISO
Inferred from Sequence Orthology
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
  
is_active_in cortical actin cytoskeleton IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoskeleton ISO
Inferred from Sequence Orthology
more info
  
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_001100889.1 → NP_001094359.1  protein Shroom3

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000014
    UniProtKB/TrEMBL
    A0A8I5XVY8
    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:1662 → 1945
    ASD2; Apx/Shroom domain ASD2
    pfam08688
    Location:891 → 1070
    ASD1; Apx/Shroom domain ASD1

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_086032.1 Reference GRCr8

    Range
    15383769..15681158 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006250723.5 → XP_006250785.1  protein Shroom3 isoform X1

    See identical proteins and their annotated locations for XP_006250785.1

    UniProtKB/TrEMBL
    A0A8I5XVY8, A6KK58, F1LP26
    Related
    ENSRNOP00000107290.1, ENSRNOT00000128277.1
    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:1663 → 1946
    ASD2; Apx/Shroom domain ASD2
    pfam08688
    Location:891 → 1070
    ASD1; Apx/Shroom domain ASD1

  2. XM_039091852.2 → XP_038947780.1  protein Shroom3 isoform X2

    UniProtKB/TrEMBL
    A0A8I5XVY8
    Related
    ENSRNOP00000003001.7, ENSRNOT00000003001.8
    Conserved Domains (3) summary
    PTZ00449
    Location:571 → 830
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    pfam08687
    Location:1488 → 1771
    ASD2; Apx/Shroom domain ASD2
    pfam08688
    Location:716 → 895
    ASD1; Apx/Shroom domain ASD1
Nucleotide Protein Strain
Heading Accession and Version

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