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

    Gene ID: 10921, updated on 9-Jul-2017
    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; Vega:OTTHUMG00000128828
    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]
    Orthologs
    Location:
    16p13.3
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    108 current GRCh38.p7 (GCF_000001405.33) 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

    • 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 Jun 15 11:32:44 2016

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    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

    • 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 ...
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Clone Names

    • MGC117332

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    RNA binding IDA
    Inferred from Direct Assay
    more info
    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 IDA
    Inferred from Direct Assay
    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 IDA
    Inferred from Direct Assay
    more info
     
    nucleoplasm TAS
    Traceable Author Statement
    more info
     
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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

    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, OTTHUMP00000255873, ENST00000565678.5, OTTHUMT00000435415
      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, OTTHUMP00000255871, ENST00000566458.5, OTTHUMT00000435411
      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, OTTHUMP00000255878, ENST00000567147.5, OTTHUMT00000435420
      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, OTTHUMP00000255870, ENST00000397086.6, OTTHUMT00000435410
      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_080594.3NP_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, OTTHUMP00000159047, ENST00000320225.9, OTTHUMT00000250766
      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, OTTHUMT00000435416

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 108 details...Open this link in a new tab

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

    Reference GRCh38.p7 Primary Assembly

    Genomic

    1. NC_000016.10 Reference GRCh38.p7 Primary Assembly

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

    mRNA and Protein(s)

    1. XM_005255048.1XP_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
      ENSP00000454461.1, OTTHUMP00000255881, ENST00000561518.5, OTTHUMT00000435423
      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_017022874.1XP_016878363.1  RNA-binding protein with serine-rich domain 1 isoform X1

      UniProtKB/Swiss-Prot
      Q15287
      UniProtKB/TrEMBL
      D3DU92
      Related
      ENSP00000457820.1, OTTHUMP00000255875, ENST00000568631.5, OTTHUMT00000435417
      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
    3. XM_005255049.3XP_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

    Alternate CHM1_1.1

    Genomic

    1. NC_018927.2 Alternate CHM1_1.1

      Range
      2303074..2318370 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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