snfc-5 SWI/SNF Subunit INI1 DNA binding domain-containing protein [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: snfc-5
Official Full Name: SWI/SNF Subunit INI1 DNA binding domain-containing protein
Primary source: WormBase:WBGene00011111
Locus tag: CELE_R07E5.3
See related: AllianceGenome:WB:WBGene00011111
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Predicted to enable transcription coactivator activity. Predicted to be involved in chromatin remodeling and regulation of transcription by RNA polymerase II. Predicted to be located in nuclear chromosome. Predicted to be part of brahma complex; nBAF complex; and npBAF complex. Predicted to be active in nucleus. Is expressed in germ line and head. Human ortholog(s) of this gene implicated in Coffin-Siris syndrome 3; central nervous system cancer (multiple); rhabdoid cancer; and schwannomatosis (multiple). Orthologous to human SMARCB1 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See snfc-5 in Genome Data Viewer

Location:: chromosome: III

Exon count:: 4

Sequence:: Chromosome: III; NC_003281.10 (4404786..4406285)

Chromosome III - NC_003281.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003281.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Loss of the E3 ubiquitin ligases UBR-5 or HECD-1 restores Caenorhabditis elegans development in the absence of SWI/SNF function.
Title: Loss of the E3 ubiquitin ligases UBR-5 or HECD-1 restores Caenorhabditis elegans development in the absence of SWI/SNF function.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

R07E5.3 (e-PCR)
- UniSTS:307854

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription coactivator activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of SWI/SNF superfamily-type complex	IEA Inferred from Electronic Annotation more info
part_of brahma complex	IBA Inferred from Biological aspect of Ancestor more info
part_of nBAF complex	IBA Inferred from Biological aspect of Ancestor more info
part_of npBAF complex	IBA Inferred from Biological aspect of Ancestor more info
located_in nuclear chromosome	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: SWI/SNF Subunit INI1 DNA binding domain-containing protein

NP_001369845.1

Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NC_003281.10 Reference assembly

Range

4404786..4406285

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001384071.2 → NP_001369845.1 SWI/SNF Subunit INI1 DNA binding domain-containing protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

Q21831

Conserved Domains (2) summary

pfam04855
Location:176 → 359

SNF5; SNF5 / SMARCB1 / INI1

cd21086
Location:11 → 98

WH_NTD_SMARCB1; N-terminal winged helix DNA-binding domain found in SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 (SMARCB1) and similar proteins