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

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; 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

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_000071.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Shroom3, a Gene Associated with CKD, Modulates Epithelial Recovery after AKI.
Title: Shroom3, a Gene Associated with CKD, Modulates Epithelial Recovery after AKI.
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.
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.
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.
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.
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.
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.
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.
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.
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.

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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

D5Ertd287e (e-PCR), detects polymorphism
- UniSTS:167427

31.MMHAP42FLC4.seq (e-PCR)
- UniSTS:123942

RH126591 (e-PCR)
- UniSTS:209710

MPC1903 (e-PCR)
- UniSTS:130625

D5Mit86.1 (e-PCR), detects polymorphism
- UniSTS:130626

RH125387 (e-PCR)
- UniSTS:162209

AU040252 (e-PCR)
- UniSTS:207817

NoName (e-PCR)
- UniSTS:235219

NoName (e-PCR)
- UniSTS:235225

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)

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
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
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

NC_000071.7 Reference GRCm39 C57BL/6J

Range

92831294..93113618

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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