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RNPS1 RNA binding protein with serine rich domain 1 [ Homo sapiens (human) ]

Gene ID: 10921, updated on 15-Apr-2019

Summary

Official Symbol
RNPS1provided by HGNC
Official Full Name
RNA binding protein with serine rich domain 1provided by HGNC
Primary source
HGNC:HGNC:10080
See related
Ensembl:ENSG00000205937 MIM:606447
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
E5.1
Summary
This gene encodes a protein that is part of a post-splicing multiprotein complex involved in both mRNA nuclear export and mRNA surveillance. mRNA surveillance detects exported mRNAs with truncated open reading frames and initiates nonsense-mediated mRNA decay (NMD). When translation ends upstream from the last exon-exon junction, this triggers NMD to degrade mRNAs containing premature stop codons. This protein binds to the mRNA and remains bound after nuclear export, acting as a nucleocytoplasmic shuttling protein. This protein contains many serine residues. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Nov 2013]
Expression
Ubiquitous expression in bone marrow (RPKM 25.4), testis (RPKM 24.3) and 25 other tissues See more
Orthologs

Genomic context

See RNPS1 in Genome Data Viewer
Location:
16p13.3
Exon count:
11
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 16 NC_000016.10 (2253116..2268412, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (2303100..2318413, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene deoxyribonuclease 1 like 2 Neighboring gene enoyl-CoA delta isomerase 1 Neighboring gene uncharacterized LOC107984839 Neighboring gene uncharacterized LOC106660606 Neighboring gene microRNA 3677 Neighboring gene microRNA 940

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of RNA binding protein S1, serine-rich domain (RNPS1) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Cleavage of Growing Transcript in the Termination Region, organism-specific biosystem (from REACTOME)
    Cleavage of Growing Transcript in the Termination Region, organism-specific biosystemThis section includes the cleavage of both polyadenylated and non-polyadenylated transcripts. In the former case polyadenylation has to precede transcript cleavage, while in the latter case there is ...
  • Exon junction complex (EJC), organism-specific biosystem (from KEGG)
    Exon junction complex (EJC), organism-specific biosystemStructural complex; Genetic information processing; RNA processing
  • Exon junction complex (EJC), conserved biosystem (from KEGG)
    Exon junction complex (EJC), conserved biosystemStructural complex; Genetic information processing; RNA processing
  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC), organism-specific biosystem (from REACTOME)
    Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC), organism-specific biosystemDuring normal translation termination eRF3 associates with the ribosome and then interacts with PABP bound to the polyadenylate tail of the mRNA to release the ribosome and allow a new round of trans...
  • Nonsense-Mediated Decay (NMD), organism-specific biosystem (from REACTOME)
    Nonsense-Mediated Decay (NMD), organism-specific biosystemThe Nonsense-Mediated Decay (NMD) pathway activates the destruction of mRNAs containing premature termination codons (PTCs) (reviewed in Isken and Maquat 2007, Chang et al. 2007, Behm-Ansmant et al. ...
  • Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystem (from REACTOME)
    Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystemCo-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per ge...
  • RNA Polymerase II Transcription, organism-specific biosystem (from REACTOME)
    RNA Polymerase II Transcription, organism-specific biosystem
    RNA Polymerase II Transcription
  • RNA Polymerase II Transcription Termination, organism-specific biosystem (from REACTOME)
    RNA Polymerase II Transcription Termination, organism-specific biosystemThe detailed annotation of this section will be completed in the next release.
  • RNA transport, organism-specific biosystem (from KEGG)
    RNA transport, organism-specific biosystemRNA transport from the nucleus to the cytoplasm is fundamental for gene expression. The different RNA species that are produced in the nucleus are exported through the nuclear pore complexes (NPCs) ...
  • RNA transport, conserved biosystem (from KEGG)
    RNA transport, conserved biosystemRNA transport from the nucleus to the cytoplasm is fundamental for gene expression. The different RNA species that are produced in the nucleus are exported through the nuclear pore complexes (NPCs) ...
  • Transport of Mature Transcript to Cytoplasm, organism-specific biosystem (from REACTOME)
    Transport of Mature Transcript to Cytoplasm, organism-specific biosystemTransport of mRNA through the Nuclear Pore Complex (NPC) is a dynamic process involving distinct machinery and receptor subsets. The separation of the two compartments and the regulation of this tran...
  • Transport of Mature mRNA derived from an Intron-Containing Transcript, organism-specific biosystem (from REACTOME)
    Transport of Mature mRNA derived from an Intron-Containing Transcript, organism-specific biosystemTransport of mRNA from the nucleus to the cytoplasm, where it is translated into protein, is highly selective and closely coupled to correct RNA processing. This coupling is achieved by the nuclear p...
  • mRNA 3'-end processing, organism-specific biosystem (from REACTOME)
    mRNA 3'-end processing, organism-specific biosystemThe 3' ends of eukaryotic mRNAs are generated by posttranscriptional processing of an extended primary transcript. For almost all RNAs, 3'-end processing consists of two steps: (i) the mRNA is first ...
  • mRNA Processing, organism-specific biosystem (from WikiPathways)
    mRNA Processing, organism-specific biosystemThis process describes the conversion of precursor messenger RNA into mature messenger RNA (mRNA). The pre-mRNA molecule undergoes three main modifications. These modifications are 5' capping, 3' po...
  • mRNA Splicing, organism-specific biosystem (from REACTOME)
    mRNA Splicing, organism-specific biosystemThe process in which excision of introns from the primary transcript of messenger RNA (mRNA) is followed by ligation of the two exon termini exposed by removal of each intron, is called mRNA splicing...
  • mRNA Splicing - Major Pathway, organism-specific biosystem (from REACTOME)
    mRNA Splicing - Major Pathway, organism-specific biosystemThe splicing of pre-mRNA occurs within a large, very dynamic complex, designated the 'spliceosome'. The 50-60S spliceosomes are estimated to be 40-60 nm in diameter, and have molecular weights in the...
  • mRNA surveillance pathway, organism-specific biosystem (from KEGG)
    mRNA surveillance pathway, organism-specific biosystemThe mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go ...
  • mRNA surveillance pathway, conserved biosystem (from KEGG)
    mRNA surveillance pathway, conserved biosystemThe mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go ...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC117332

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
NOT RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
mRNA 3'-UTR binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
ASAP complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ASAP complex IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
colocalizes_with exon-exon junction complex TAS
Traceable Author Statement
more info
PubMed 
nuclear speck IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
RNA-binding protein with serine-rich domain 1
Names
RNA binding protein with serine-rich domain
RNA-binding protein S1, serine-rich domain
SR protein
SR-related protein LDC2

NCBI Reference Sequences (RefSeq)

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)

  1. NM_001286625.1NP_001273554.1  RNA-binding protein with serine-rich domain 1 isoform a

    See identical proteins and their annotated locations for NP_001273554.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant (2). Variants 1, 2, and 3 all encode the same isoform (a).
    Source sequence(s)
    BC108316, DA062271, L37368
    Consensus CDS
    CCDS10465.1
    UniProtKB/Swiss-Prot
    Q15287
    UniProtKB/TrEMBL
    D3DU92
    Related
    ENSP00000457723.1, ENST00000565678.5
    Conserved Domains (1) summary
    cd12365
    Location:163236
    RRM_RNPS1; RNA recognition motif in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins
  2. NM_001286626.1NP_001273555.1  RNA-binding protein with serine-rich domain 1 isoform b

    See identical proteins and their annotated locations for NP_001273555.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks an alternate exon compared to variant 2. The resulting isoform (b) has a shorter and distinct N-terminus compared to isoform a.
    Source sequence(s)
    AK316132, BC108316, DA818573
    Consensus CDS
    CCDS66907.1
    UniProtKB/Swiss-Prot
    Q15287
    Related
    ENSP00000456352.1, ENST00000566458.5
    Conserved Domains (1) summary
    cd12365
    Location:140213
    RRM_RNPS1; RNA recognition motif in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins
  3. NM_001286627.1NP_001273556.1  RNA-binding protein with serine-rich domain 1 isoform c

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks two alternate exons compared to variant 2. The resulting isoform (c) has shorter and distinct N- and C-termini compared to isoform a.
    Source sequence(s)
    BC108316, BI819738, DA818573
    Consensus CDS
    CCDS73811.1
    UniProtKB/Swiss-Prot
    Q15287
    UniProtKB/TrEMBL
    H3BMS0
    Related
    ENSP00000454513.1, ENST00000567147.5
    Conserved Domains (1) summary
    cd12365
    Location:140203
    RRM_RNPS1; RNA recognition motif in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins
  4. NM_006711.4NP_006702.1  RNA-binding protein with serine-rich domain 1 isoform a

    See identical proteins and their annotated locations for NP_006702.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR compared to variant (2). Variants 1, 2, and 3 all encode the same isoform (a).
    Source sequence(s)
    BC108316, HY012482
    Consensus CDS
    CCDS10465.1
    UniProtKB/Swiss-Prot
    Q15287
    UniProtKB/TrEMBL
    D3DU92
    Related
    ENSP00000380275.2, ENST00000397086.6
    Conserved Domains (1) summary
    cd12365
    Location:163236
    RRM_RNPS1; RNA recognition motif in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins
  5. NM_080594.4NP_542161.1  RNA-binding protein with serine-rich domain 1 isoform a

    See identical proteins and their annotated locations for NP_542161.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) represents the predominant transcript and encodes the longest isoform (a). Variants 1, 2, and 3 all encode the same isoform (a).
    Source sequence(s)
    BC108316, BQ059026, DA818573
    Consensus CDS
    CCDS10465.1
    UniProtKB/Swiss-Prot
    Q15287
    UniProtKB/TrEMBL
    D3DU92
    Related
    ENSP00000315859.5, ENST00000320225.10
    Conserved Domains (1) summary
    cd12365
    Location:163236
    RRM_RNPS1; RNA recognition motif in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins

RNA

  1. NR_104485.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) has an alternate 5' end and lacks an alternate internal exon compared to variant 2. This variant is represented as non-coding because it lacks a large portion of the coding region, including the translational start codon, compared to variant 2.
    Source sequence(s)
    AC009065, AF274003, AL559988, BC108316, DA818573
    Related
    ENST00000561718.5

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p12 Primary Assembly

    Range
    2253116..2268412 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005255048.2XP_005255105.1  RNA-binding protein with serine-rich domain 1 isoform X1

    See identical proteins and their annotated locations for XP_005255105.1

    UniProtKB/Swiss-Prot
    Q15287
    UniProtKB/TrEMBL
    D3DU92
    Related
    ENSP00000457820.1, ENST00000568631.5
    Conserved Domains (1) summary
    cd12365
    Location:163236
    RRM_RNPS1; RNA recognition motif in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins
  2. XM_005255049.4XP_005255106.1  RNA-binding protein with serine-rich domain 1 isoform X1

    See identical proteins and their annotated locations for XP_005255106.1

    UniProtKB/Swiss-Prot
    Q15287
    UniProtKB/TrEMBL
    D3DU92
    Conserved Domains (1) summary
    cd12365
    Location:163236
    RRM_RNPS1; RNA recognition motif in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins
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