SNRPA small nuclear ribonucleoprotein polypeptide A [Homo sapiens (human)] - Gene

Summary

Official Symbol: SNRPAprovided by HGNC
Official Full Name: small nuclear ribonucleoprotein polypeptide Aprovided by HGNC
Primary source: HGNC:HGNC:11151
See related: Ensembl:ENSG00000077312 MIM:182285; AllianceGenome:HGNC:11151
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: U1A; Mud1; U1-A
Summary: The protein encoded by this gene associates with stem loop II of the U1 small nuclear ribonucleoprotein, which binds the 5' splice site of precursor mRNAs and is required for splicing. The encoded protein autoregulates itself by polyadenylation inhibition of its own pre-mRNA via dimerization and has been implicated in the coupling of splicing and polyadenylation. [provided by RefSeq, Oct 2010]
Expression: Ubiquitous expression in spleen (RPKM 22.2), lymph node (RPKM 20.2) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 19q13.2

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	19	NC_000019.10 (40751203..40765389)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	19	NC_060943.1 (43571894..43586079)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	19	NC_000019.9 (41257108..41271294)

Chromosome 19 - NC_000019.10 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: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Circ_0009910 Serves as miR-361-3p Sponge to Promote the Proliferation, Metastasis, and Glycolysis of Gastric Cancer via Regulating SNRPA.
Title: Circ_0009910 Serves as miR-361-3p Sponge to Promote the Proliferation, Metastasis, and Glycolysis of Gastric Cancer via Regulating SNRPA.
The Small Nuclear Ribonucleoprotein Polypeptide A (SNRPA) binds to the G-quadruplex of the BAG-1 5'UTR.
Title: The Small Nuclear Ribonucleoprotein Polypeptide A (SNRPA) binds to the G-quadruplex of the BAG-1 5'UTR.
Screen using siRNA revealed depletion of U1 snRNP components SNRPA, SNRNP70 or SNRPD2 caused significant cytoplasmic localization of MEG3 reporter transcripts.
Title: Nuclear retention element recruits U1 snRNP components to restrain spliced lncRNAs in the nucleus.
the previously unreported concurrence of intellectual disability, short stature, poor speech, and minor craniofacial and hand anomalies in 2 female siblings with 3 homozygous missense variants in SNRPA, is reported.
Title: Exome sequencing reveals three homozygous missense variants in SNRPA in two sisters with syndromic intellectual disability.
SNRPA may contribute to GC progression via NGF and could be a prognostic biomarker for GC.
Title: SNRPA enhances tumour cell growth in gastric cancer through modulating NGF expression.
p65 activation triggered by TCR signaling could promote SNRPA transcription and 3' UTR shortening of STAT5B. Thus we propose that the alternative polyadenylation switching of STAT5B induced by TCR activation is mediated by SNRPA.
Title: Small Nuclear Ribonucleoprotein Polypeptide A-Mediated Alternative Polyadenylation of STAT5B during Th1 Cell Differentiation.
a new mechanism for regulating SMN levels and provides new insight into the roles of U1A in 3' processing of mRNAs.
Title: U1A regulates 3' processing of the survival motor neuron mRNA.
An analysis of the kinetic data suggests three phases of U1A-SL2 RNA complex dissociation with time scales of approximately 100 mus, approximately 50 ms, and approximately 2 s. We propose that the first step of dissociation is a fast rearrangement of the complex to form a loosely bound complex.
Title: Multistep kinetics of the U1A-SL2 RNA complex dissociation.
structural analysis of U1A protein-stem loop 2 RNA recognition
Title: U1A protein-stem loop 2 RNA recognition: prediction of structural differences from protein mutations.
study shows that the yellow fever virus (YFV) NS5 protein is able to interact with U1A, a protein involved in splicing and polyadenylation; a region between amino acids 368 and 448 was identified as the site of interaction of the NS5 protein with U1A
Title: The small nuclear ribonucleoprotein U1A interacts with NS5 from yellow fever virus.

Submit: New GeneRIF Correction See all GeneRIFs (13)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
Knockdown of small nuclear ribonucleoprotein polypeptide A (SNRPA) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1	PubMed

Protein interactions

Protein	Gene	Interaction	Pubs
Nef	nef	Expression of HIV-1 Nef in human T cells upregulates U1 SNRNP, a factor that positively regulates HIV-1	PubMed
Tat	tat	Small nuclear ribonucleoprotein polypeptide A (SNRPA) is identified to interact with HIV-1 Tat mutant Nullbasic in HeLa cells by LC MS/MS	PubMed
	tat	Expression of HIV-1 Tat downregulates the abundance of small nuclear ribonucleoprotein polypeptide A (SNRPA) in the nucleoli of Jurkat T-cells	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

STS-N55164 (e-PCR)
- UniSTS:28185

RH123900 (e-PCR)
- UniSTS:136275

RH77942 (e-PCR)
- UniSTS:53607

G65653 (e-PCR)
- UniSTS:225444

RH80281 (e-PCR)
- UniSTS:87233

RH67887 (e-PCR)
- UniSTS:5852

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables DNA binding	EXP Inferred from Experiment more info	PubMed
enables RNA binding	HDA more info	PubMed
enables RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables U1 snRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables U1 snRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables U1 snRNP binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA splicing, via spliceosome	IC Inferred by Curator more info	PubMed
involved_in mRNA splicing, via spliceosome	NAS Non-traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
part_of U1 snRNP	IBA Inferred from Biological aspect of Ancestor more info
part_of U1 snRNP	IDA Inferred from Direct Assay more info	PubMed
part_of U1 snRNP	IPI Inferred from Physical Interaction more info	PubMed
part_of U4/U6 x U5 tri-snRNP complex	IPI Inferred from Physical Interaction more info	PubMed
located_in nucleoplasm	IDA Inferred from Direct Assay more info
located_in nucleoplasm	TAS Traceable Author Statement more info
located_in nucleus	NAS Non-traceable Author Statement more info	PubMed
part_of spliceosomal complex	IDA Inferred from Direct Assay more info	PubMed
part_of spliceosomal complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

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Preferred Names: U1 small nuclear ribonucleoprotein A

Names: U1 small nuclear RNP-specific A; U1 snRNP A; U1 snRNP-specific protein A

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_004596.5 → NP_004587.1 U1 small nuclear ribonucleoprotein A

See identical proteins and their annotated locations for NP_004587.1

Status: REVIEWED

Source sequence(s)

AC020945, BC000405

Consensus CDS

CCDS12565.1

UniProtKB/Swiss-Prot

P09012

UniProtKB/TrEMBL

B2R802

Related

ENSP00000243563.2, ENST00000243563.8

Conserved Domains (2) summary

cd12477
Location:7 → 95

RRM1_U1A; RNA recognition motif 1 (RRM1) found in vertebrate U1 small nuclear ribonucleoprotein A (U1A)

cd12480
Location:197 → 282

RRM2_U1A; RNA recognition motif 2 (RRM2) found in vertebrate U1 small nuclear ribonucleoprotein A (U1 snRNP A or U1-A or U1A)