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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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See Shroom4 in Genome Data Viewer
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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