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    HNRNPA1 heterogeneous nuclear ribonucleoprotein A1 [ Homo sapiens (human) ]

    Gene ID: 3178, updated on 3-Nov-2024

    Summary

    Official Symbol
    HNRNPA1provided by HGNC
    Official Full Name
    heterogeneous nuclear ribonucleoprotein A1provided by HGNC
    Primary source
    HGNC:HGNC:5031
    See related
    Ensembl:ENSG00000135486 MIM:164017; AllianceGenome:HGNC:5031
    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
    MPD3; UP 1; ALS19; ALS20; HNRPA1; IBMPFD3; HNRPA1L3; hnRNP A1; hnRNP-A1
    Summary
    This gene encodes a member of a family of ubiquitously expressed heterogeneous nuclear ribonucleoproteins (hnRNPs), which are RNA-binding proteins that associate with pre-mRNAs in the nucleus and influence pre-mRNA processing, as well as other aspects of mRNA metabolism and transport. The protein encoded by this gene is one of the most abundant core proteins of hnRNP complexes and plays a key role in the regulation of alternative splicing. Mutations in this gene have been observed in individuals with amyotrophic lateral sclerosis 20. Multiple alternatively spliced transcript variants have been found. There are numerous pseudogenes of this gene distributed throughout the genome. [provided by RefSeq, Feb 2016]
    Expression
    Ubiquitous expression in ovary (RPKM 647.6), bone marrow (RPKM 364.1) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See HNRNPA1 in Genome Data Viewer
    Location:
    12q13.13
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (54280726..54287087)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (54247303..54253664)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (54674510..54680871)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene chromobox 5 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:54650247-54650908 Neighboring gene RNA, 7SL, cytoplasmic 390, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6436 Neighboring gene S-phase cancer associated transcript 2 Neighboring gene CRISPRi-FlowFISH-validated NFE2 regulatory element 2 Neighboring gene CRISPRi-FlowFISH-validated HNRNPA1 regulatory element Neighboring gene CRISPRi-FlowFISH-validated COPZ1 and HNRNPA1 regulatory element Neighboring gene nuclear factor, erythroid 2 Neighboring gene CRISPRi-FlowFISH-validated HNRNPA1 and NFE2 regulatory element 1 Neighboring gene CRISPRi-FlowFISH-validated COPZ1, HNRNPA1 and NFE2 regulatory element Neighboring gene CRISPRi-FlowFISH-validated HNRNPA1 and NFE2 regulatory element 2 Neighboring gene RNA, U6 small nuclear 950, pseudogene

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues 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 Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein A1 (HNRNPA1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    env Depletion of hnRNP A1 and A2 increase expression of viral structural proteins Gag, Env, and gp120 PubMed
    Envelope surface glycoprotein gp160, precursor env Depletion of hnRNP A1 and A2 increase expression of viral structural proteins Gag, Env, and gp120 PubMed
    Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein A1 (HNRNPA1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Nef nef Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein A1 (HNRNPA1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein A1 (HNRNPA1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    gag Depletion of hnRNP A1 and A2 increase expression of viral structural proteins Gag, Env, and gp120 PubMed
    Rev rev HIV-1 Rev interacting protein, heterogeneous nuclear ribonucleoprotein A1 (HNRNPA1), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with HNRNPA1 is increased by RRE PubMed
    rev HIV-1 Rev interacts with the heterogeneous nuclear ribonucleoproteins (hnRNP) A1. The amino acids 9-14 in Rev and the arginine residues within the RGG box (amino acids 191-238) of hnRNP A1 are required for the interaction between Rev and hnRNP A1 PubMed
    rev hnRNP A1 modulates Rev expression by controlling HIV-1 mRNA splicing PubMed
    rev hnRNP A1 binds to cis-acting repressive (CRS) sequences in HIV-1 RNA suggesting a role for this binding in influencing Rev function PubMed
    rev hnRNP A1 binds to an instability (INS) element in the p17gag gene of HIV-1 RNA causing synergistic stimulation of Rev-dependent nuclear export of unspliced HIV-1 mRNA PubMed
    retropepsin gag-pol Positional proteomics analysis identifies the cleavage of human heterogeneous nuclear ribonucleoprotein A1 (HNRNPA1) at amino acid residues 181-182 by the HIV-1 protease PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC102835

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding EXP
    Inferred from Experiment
    more info
    PubMed 
    enables G-rich strand telomeric DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables RNA binding HDA PubMed 
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables mRNA 3'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables miRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables pre-mRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein domain specific binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables single-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables single-stranded RNA binding IC
    Inferred by Curator
    more info
    PubMed 
    enables telomeric repeat-containing RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of catalytic step 2 spliceosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in extracellular exosome HDA PubMed 
    located_in membrane HDA PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of spliceosomal complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    heterogeneous nuclear ribonucleoprotein A1
    Names
    epididymis secretory sperm binding protein
    helix-destabilizing protein
    heterogeneous nuclear ribonucleoprotein A1B protein
    heterogeneous nuclear ribonucleoprotein B2 protein
    heterogeneous nuclear ribonucleoprotein core protein A1
    hnRNP core protein A1-like 3
    nuclear ribonucleoprotein particle A1 protein
    putative heterogeneous nuclear ribonucleoprotein A1-like 3
    single-strand DNA-binding protein UP1
    single-strand RNA-binding protein

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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.

    Genomic

    1. NG_033830.1 RefSeqGene

      Range
      5023..11384
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_002136.4 → NP_002127.1  heterogeneous nuclear ribonucleoprotein A1 isoform a

      See identical proteins and their annotated locations for NP_002127.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1, also known as A1) encodes isoform a.
      Source sequence(s)
      AC078778, BC052296, CD705336
      Consensus CDS
      CCDS41793.1
      UniProtKB/TrEMBL
      A0A024RB53, Q6IPF2
      Related
      ENSP00000448617.1, ENST00000546500.5
      Conserved Domains (3) summary
      pfam11627
      Location:255 → 292
      HnRNPA1; Nuclear factor hnRNPA1
      cd12582
      Location:105 → 184
      RRM2_hnRNPA3; RNA recognition motif 2 (RRM2) found in heterogeneous nuclear ribonucleoprotein A3 (hnRNP A3) and similar proteins
      cd12761
      Location:12 → 92
      RRM1_hnRNPA1; RNA recognition motif 1 (RRM1) found in heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) and similar proteins
    2. NM_031157.4 → NP_112420.1  heterogeneous nuclear ribonucleoprotein A1 isoform b

      See identical proteins and their annotated locations for NP_112420.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2, also known as A1B) contains an alternate in-frame exon compared to variant 1, resulting in a longer protein (isoform b) than isoform 1.
      Source sequence(s)
      AC078778, BC052296, BC070315, BU541100, CD705336
      Consensus CDS
      CCDS44909.1
      UniProtKB/Swiss-Prot
      A8K4Z8, P09651, Q3MIB7, Q6PJZ7
      UniProtKB/TrEMBL
      Q6IPF2
      Related
      ENSP00000341826.7, ENST00000340913.11
      Conserved Domains (3) summary
      pfam11627
      Location:307 → 344
      HnRNPA1; Nuclear factor hnRNPA1
      cd12582
      Location:105 → 184
      RRM2_hnRNPA3; RNA recognition motif 2 (RRM2) found in heterogeneous nuclear ribonucleoprotein A3 (hnRNP A3) and similar proteins
      cd12761
      Location:12 → 92
      RRM1_hnRNPA1; RNA recognition motif 1 (RRM1) found in heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) and similar proteins

    RNA

    1. NR_135167.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an exon and contains two alternate 3' terminal exons compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      BC070315, CD705336

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      54280726..54287087
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      54247303..54253664
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)