asd-1 RRM domain-containing protein [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: asd-1
Official Full Name: RRM domain-containing protein
Primary source: WormBase:WBGene00011279
Locus tag: CELE_R74.5
See related: AllianceGenome:WB:WBGene00011279
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: Enables single-stranded RNA binding activity. Predicted to be involved in nervous system development and regulation of alternative mRNA splicing, via spliceosome. Predicted to be active in cytoplasm and nucleus. Is expressed in body wall musculature; intestine; nervous system; pharynx; and vulval muscle. Human ortholog(s) of this gene implicated in congenital heart disease. Orthologous to human RBFOX1 (RNA binding fox-1 homolog 1); RBFOX2 (RNA binding fox-1 homolog 2); and RBFOX3 (RNA binding fox-1 homolog 3). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See asd-1 in Genome Data Viewer

Location:: chromosome: III

Exon count:: 6

Sequence:: Chromosome: III; NC_003281.10 (4197285..4202285)

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?

Here we combine RNA-seq with in vitro binding assays to study how 4 different C. elegans SFs, ASD-1, FOX-1, MEC-8, and EXC-7, regulate splicing. The 4 SFs chosen all have well-characterised biology and well-studied loss-of-function genetic alleles, and all contain RRM domains
Title: The combinatorial control of alternative splicing in C. elegans.
Determined is the solution structure of a ternary complex of the RNA-recognition motif (RRM) domains from the RBFOX protein ASD-1, SUP-12 and their target RNA from egl-15.
Title: RBFOX and SUP-12 sandwich a G base to cooperatively regulate tissue-specific splicing.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

R74.5 (e-PCR)
- UniSTS:314817

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables single-stranded RNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in nervous system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in nervous system development	IEA Inferred from Electronic Annotation more info
involved_in regulation of alternative mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of alternative mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor 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: RRM domain-containing protein

NP_001293646.1

Confirmed by transcript evidence

NP_001379389.1

Confirmed by transcript evidence

NP_497841.1

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

4197285..4202285

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001393315.1 → NP_001379389.1 RRM domain-containing protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

Q86G94

Conserved Domains (1) summary

cl17169
Location:1 → 57

RRM_SF; RNA recognition motif (RRM) superfamily
NM_065440.6 → NP_497841.1 RRM domain-containing protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_497841.1

Status: REVIEWED

UniProtKB/TrEMBL

G5EEW7

Conserved Domains (1) summary

cd12407
Location:100 → 175

RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
NM_001306717.3 → NP_001293646.1 RRM domain-containing protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001293646.1

Status: REVIEWED

UniProtKB/TrEMBL

M1ZJT7

Conserved Domains (1) summary

cd12407
Location:75 → 150

RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins