uaf-1 Splicing factor U2AF 65 kDa subunit [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: uaf-1
Official Full Name: Splicing factor U2AF 65 kDa subunit
Primary source: WormBase:WBGene00006697
Locus tag: CELE_Y92C3B.2
See related: AllianceGenome:WB:WBGene00006697
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 pre-mRNA 3'-splice site binding activity. Involved in several processes, including embryonic body morphogenesis; mRNA 3'-splice site recognition; and nematode larval development. Located in nucleoplasm. Human ortholog(s) of this gene implicated in developmental delay, dysmorphic facies, and brain anomalies. Orthologous to human U2AF2 (U2 small nuclear RNA auxiliary factor 2). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See uaf-1 in Genome Data Viewer

Location:: chromosome: III

Exon count:: 7

Sequence:: Chromosome: III; NC_003281.10 (1062794..1076555, complement)

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?

CCAR-1 works together with the U2AF large subunit UAF-1 to regulate alternative splicing.
Title: CCAR-1 works together with the U2AF large subunit UAF-1 to regulate alternative splicing.
Our findings provide novel in vivo evidence that RBM-5 can modulate UAF-1-dependent RNA splicing and suggest that RBM5 might interact with U2AF large subunit to affect tumor formation
Title: RBM-5 modulates U2AF large subunit-dependent alternative splicing in C. elegans.
WDR-20 and WDR-48 form a complex with USP-46 and stimulate the DUB to deubiquitinate and stabilize GLR-1 in vivo.
Title: The WD40-repeat proteins WDR-20 and WDR-48 bind and activate the deubiquitinating enzyme USP-46 to promote the abundance of the glutamate receptor GLR-1 in the ventral nerve cord of Caenorhabditis elegans.
The interaction of TEG-1 CD2BP2 with UAF-1 U2AF65, combined with its previously described function in U4/U6.U5 tri-snRNP, suggests that TEG-1 CD2BP2 functions in two distinct locations in the splicing cascade.
Title: TEG-1 CD2BP2 regulates stem cell proliferation and sex determination in the C. elegans germ line and physically interacts with the UAF-1 U2AF65 splicing factor.
Mutations in the splicing factors U2AF large subunit altered the splicing of tos-1. 3' splice sites.
Title: In vivo effects on intron retention and exon skipping by the U2AF large subunit and SF1/BBP in the nematode Caenorhabditis elegans.
observations provide in vivo evidence that UAF-1 can act in regulating 3' splice-site choice and establish a system that can be used to investigate the in vivo regulation of RNA splicing in C. elegans.
Title: Mutations in the Caenorhabditis elegans U2AF large subunit UAF-1 alter the choice of a 3' splice site in vivo.

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Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info
enables poly-pyrimidine tract binding	IBA Inferred from Biological aspect of Ancestor more info
enables pre-mRNA 3'-splice site binding	IBA Inferred from Biological aspect of Ancestor more info
enables pre-mRNA 3'-splice site binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in developmental growth	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryo development ending in birth or egg hatching	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryonic body morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in germ cell development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA 3'-splice site recognition	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in nematode larval development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of mRNA splicing, via spliceosome	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in spliceosomal complex assembly	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of U2-type prespliceosome	IBA Inferred from Biological aspect of Ancestor more info
part_of U2AF complex	IBA Inferred from Biological aspect of Ancestor more info
part_of commitment complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nuclear speck	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of spliceosomal complex	ISS Inferred from Sequence or Structural Similarity more info	PubMed

General protein information

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Preferred Names: Splicing factor U2AF 65 kDa subunit

NP_001022967.1

Confirmed by transcript evidence

NP_001367384.1

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

1062794..1076555 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001027796.4 → NP_001022967.1 Splicing factor U2AF 65 kDa subunit [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001022967.1

Status: REVIEWED

UniProtKB/Swiss-Prot

O76839, P90978, Q95XT0, Q9N2X5

Conserved Domains (3) summary

cd12230
Location:183 → 264

RRM1_U2AF65; RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

cd12231
Location:291 → 366

RRM2_U2AF65; RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

cd12232
Location:397 → 484

RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
NM_001381724.1 → NP_001367384.1 Splicing factor U2AF 65 kDa subunit [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (1) summary

TIGR01642
Location:1 → 143

U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor