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

Gene ID: 27428, updated on 8-Nov-2022

Summary

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
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Genomic context

See Shroom3 in Genome Data Viewer
Location:
5 E2; 5 47.29 cM
Exon count:
15
Annotation release Status Assembly Chr Location
109 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 microRNA 1961 Neighboring gene VISTA enhancer mm397 Neighboring gene predicted gene, 36764 Neighboring gene ribosomal protein L9 pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1)  1 citation
  • Chemically induced (ENU) (1) 
  • Endonuclease-mediated (2) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

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
PubMed 
Component Evidence Code Pubs
is_active_in adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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
PubMed 
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
PubMed 
located_in apical plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in cell junction IEA
Inferred from Electronic Annotation
more info
 
is_active_in cortical actin cytoskeleton IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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
 

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_001077595.2NP_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
    Q9QXN0
    UniProtKB/TrEMBL
    A0A0R4J1H8
    Related
    ENSMUSP00000108677.3, ENSMUST00000113054.9
    Conserved Domains (3) summary
    PHA03247
    Location:562959
    PHA03247; large tegument protein UL36; Provisional
    pfam08687
    Location:14801764
    ASD2; Apx/Shroom domain ASD2
    pfam08688
    Location:707881
    ASD1; Apx/Shroom domain ASD1
  2. NM_001077596.2NP_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
    Q9QXN0
    UniProtKB/TrEMBL
    A0A0R4J1H8
    Related
    ENSMUSP00000108674.3, ENSMUST00000113051.9
    Conserved Domains (3) summary
    PHA03247
    Location:562959
    PHA03247; large tegument protein UL36; Provisional
    pfam08687
    Location:14801764
    ASD2; Apx/Shroom domain ASD2
    pfam08688
    Location:707881
    ASD1; Apx/Shroom domain ASD1
  3. NM_015756.2NP_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
    Q9QXN0
    UniProtKB/TrEMBL
    E9QMY5
    Related
    ENSMUSP00000108678.3, ENSMUST00000113055.9
    Conserved Domains (3) summary
    cd00992
    Location:32106
    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:16551939
    ASD2; Apx/Shroom domain ASD2
    pfam08688
    Location:8821056
    ASD1; Apx/Shroom domain ASD1

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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_006534966.5XP_006535029.1  protein Shroom3 isoform X1

    UniProtKB/TrEMBL
    A0A286YDQ8
    Related
    ENSMUSP00000153516.2, ENSMUST00000225438.2
    Conserved Domains (3) summary
    PHA03247
    Location:6561053
    PHA03247; large tegument protein UL36; Provisional
    pfam08687
    Location:15741858
    ASD2; Apx/Shroom domain ASD2
    pfam08688
    Location:801975
    ASD1; Apx/Shroom domain ASD1
  2. XM_006534968.4XP_006535031.1  protein Shroom3 isoform X2

    See identical proteins and their annotated locations for XP_006535031.1

    UniProtKB/Swiss-Prot
    Q9QXN0
    UniProtKB/TrEMBL
    A0A0R4J1H8
    Conserved Domains (3) summary
    PHA03247
    Location:562959
    PHA03247; large tegument protein UL36; Provisional
    pfam08687
    Location:14801764
    ASD2; Apx/Shroom domain ASD2
    pfam08688
    Location:707881
    ASD1; Apx/Shroom domain ASD1