U2af50 U2 small nuclear riboprotein auxiliary factor 50 [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: U2af50provided by FlyBase
Official Full Name: U2 small nuclear riboprotein auxiliary factor 50provided by FlyBase
Primary source: FLYBASE:FBgn0005411
Locus tag: Dmel_CG9998
See related: AllianceGenome:FB:FBgn0005411
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Drosophila melanogaster
Lineage: Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as: 9-21; CG9998; Dmel\CG9998; DmU2AF[50]; dU2AF50; DU2AF50; dU2AF[50]; dUTAf[50]; l(1)14Ca; l(1)14Cc; l(1)9-21; U2af; U2AF; U2AF 50; U2AF-50; U2AF50
Summary: Enables poly-pyrimidine tract binding activity. Involved in mRNA splicing, via spliceosome; nuclear export; and positive regulation of RNA export from nucleus. Located in nucleoplasm. Part of U2AF complex. Is expressed in adult brain cell body rind; adult head; and organism. Used to study developmental delay, dysmorphic facies, and brain anomalies. 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]
Orthologs: all
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Genomic context

Location:: 14B17-14B18; 1-53 cM

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	X	NC_004354.4 (16356696..16359039, complement)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	X	NC_004354.3 (16250729..16253072, complement)

Chromosome X - NC_004354.4 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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Reduction of U2AF50 expression promotes nuclear accumulation of expanded CAG RNA and enhances neurodegeneration.
Title: Perturbation of U2AF65/NXF1-mediated RNA nuclear export enhances RNA toxicity in polyQ diseases.
The splicing factor U2AF50 is found to be involved with nuclear export of intronless mrnas.
Title: Genome-wide analysis reveals an unexpected function for the Drosophila splicing factor U2AF50 in the nuclear export of intronless mRNAs.
Sex-lethal splicing autoregulation in vivo: interactions between SEX-LETHAL, the U1 snRNP and U2AF underlie male exon skipping.
Title: Sex-lethal splicing autoregulation in vivo: interactions between SEX-LETHAL, the U1 snRNP and U2AF underlie male exon skipping.

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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

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by FlyBase

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables mRNA binding	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables poly-pyrimidine tract binding	IBA Inferred from Biological aspect of Ancestor more info
enables poly-pyrimidine tract binding	IDA Inferred from Direct Assay more info	PubMed
enables pre-mRNA 3'-splice site binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in RNA splicing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in mRNA splicing, via spliceosome	IC Inferred by Curator more info	PubMed
involved_in mRNA splicing, via spliceosome	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA splicing, via spliceosome	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in nuclear export	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of RNA export from nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of alternative mRNA splicing, via spliceosome	HMP 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 U2AF complex	IDA Inferred from Direct Assay more info	PubMed
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	HDA more info	PubMed
located_in nucleus	IC Inferred by Curator more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of precatalytic spliceosome	HDA more info	PubMed
part_of spliceosomal complex	ISS Inferred from Sequence or Structural Similarity more info	PubMed

General protein information

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Preferred Names: U2 small nuclear riboprotein auxiliary factor 50

Names: CG9998-PA; CG9998-PB; CG9998-PC; CG9998-PD; U2af50-PA; U2af50-PB; U2af50-PC; U2af50-PD

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_004354.4 Reference assembly

Range

16356696..16359039 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_057543.4 → NP_476891.1 U2 small nuclear riboprotein auxiliary factor 50, isoform A [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_476891.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q24562, Q9VXH2

UniProtKB/TrEMBL

M9NDZ4

Related

FBpp0074013

Conserved Domains (1) summary

TIGR01642
Location:39 → 416

U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
NM_001258781.2 → NP_001245710.1 U2 small nuclear riboprotein auxiliary factor 50, isoform D [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001245710.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q24562, Q9VXH2

UniProtKB/TrEMBL

M9NDZ4

Conserved Domains (1) summary

TIGR01642
Location:39 → 416

U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
NM_001258780.1 → NP_001245709.1 U2 small nuclear riboprotein auxiliary factor 50, isoform C [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001245709.1

Status: REVIEWED

UniProtKB/TrEMBL

M9NH51

Conserved Domains (1) summary

TIGR01642
Location:1 → 360

U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
NM_001258779.1 → NP_001245708.1 U2 small nuclear riboprotein auxiliary factor 50, isoform B [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001245708.1

Status: REVIEWED

UniProtKB/TrEMBL

M9NF89

Conserved Domains (3) summary

cd12230
Location:103 → 184

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

cd12231
Location:218 → 294

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

cd12232
Location:328 → 415

RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins