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    HNRNPD heterogeneous nuclear ribonucleoprotein D [ Homo sapiens (human) ]

    Gene ID: 3184, updated on 3-Nov-2024

    Summary

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    Official Symbol
    HNRNPDprovided by HGNC
    Official Full Name
    heterogeneous nuclear ribonucleoprotein Dprovided by HGNC
    Primary source
    HGNC:HGNC:5036
    See related
    Ensembl:ENSG00000138668 MIM:601324; AllianceGenome:HGNC:5036
    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
    P37; AUF1; AUF1A; HNRPD; hnRNPD0
    Summary
    This gene belongs to the subfamily of ubiquitously expressed heterogeneous nuclear ribonucleoproteins (hnRNPs). The hnRNPs are nucleic acid binding proteins and they complex with heterogeneous nuclear RNA (hnRNA). These proteins are associated with pre-mRNAs in the nucleus and appear to influence pre-mRNA processing and other aspects of mRNA metabolism and transport. While all of the hnRNPs are present in the nucleus, some seem to shuttle between the nucleus and the cytoplasm. The hnRNP proteins have distinct nucleic acid binding properties. The protein encoded by this gene has two repeats of quasi-RRM domains that bind to RNAs. It localizes to both the nucleus and the cytoplasm. This protein is implicated in the regulation of mRNA stability. Alternative splicing of this gene results in four transcript variants. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in lymph node (RPKM 80.4), bone marrow (RPKM 72.5) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See HNRNPD in Genome Data Viewer
    Location:
    4q21.22
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (82352498..82373991, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (85681761..85703272, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (83273651..83295144, complement)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105377308 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15526 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15527 Neighboring gene bridging integrator 2 pseudogene 1 Neighboring gene MPRA-validated peak5068 silencer Neighboring gene vesicle associated membrane protein 9, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21658 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:83287023-83287694 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21659 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15528 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21660 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:83301399-83301972 Neighboring gene HNRNPD divergent transcript Neighboring gene IGBP1 pseudogene 4

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Arginine methylation enhances the RNA chaperone activity of the West Nile virus host factor AUF1 p45. Friedrich S, et al. RNA, 2016 Oct. PMID 27520967, Free PMC Article
    2. Cytoplasmic redistribution and cleavage of AUF1 during coxsackievirus infection enhance the stability of its viral genome. Wong J, et al. FASEB J, 2013 Jul. PMID 23572232
    3. Assembly of functional ribonucleoprotein complexes by AU-rich element RNA-binding protein 1 (AUF1) requires base-dependent and -independent RNA contacts. Zucconi BE, et al. J Biol Chem, 2013 Sep 27. PMID 23940053, Free PMC Article
    4. AU-binding factor 1 expression was correlated with metadherin expression and progression of hepatocellular carcinoma. Yang Y, et al. Tumour Biol, 2014 Mar. PMID 24213928
    5. Physiological networks and disease functions of RNA-binding protein AUF1. Moore AE, et al. Wiley Interdiscip Rev RNA, 2014 Jul-Aug. PMID 24687816

    See all (401) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. HNRNPD regulates the biogenesis of circRNAs and the ratio of mRNAs to circRNAs for a set of genes.
      Title: HNRNPD regulates the biogenesis of circRNAs and the ratio of mRNAs to circRNAs for a set of genes.
    2. CircUBE3A(2,3,4,5) promotes adenylate-uridylate-rich binding factor 1 nuclear translocation to suppress prostate cancer metastasis.
      Title: CircUBE3A(2,3,4,5) promotes adenylate-uridylate-rich binding factor 1 nuclear translocation to suppress prostate cancer metastasis.
    3. AUF1 Recognizes 8-Oxo-Guanosine Embedded in DNA and Stimulates APE1 Endoribonuclease Activity.
      Title: AUF1 Recognizes 8-Oxo-Guanosine Embedded in DNA and Stimulates APE1 Endoribonuclease Activity.
    4. AUF1-induced circular RNA hsa_circ_0010467 promotes platinum resistance of ovarian cancer through miR-637/LIF/STAT3 axis.
      Title: AUF1-induced circular RNA hsa_circ_0010467 promotes platinum resistance of ovarian cancer through miR-637/LIF/STAT3 axis.
    5. Expression of targets of the RNA-binding protein AUF-1 in human airway epithelium indicates its role in cellular senescence and inflammation.
      Title: Expression of targets of the RNA-binding protein AUF-1 in human airway epithelium indicates its role in cellular senescence and inflammation.
    6. AUF1 promotes hepatocellular carcinoma progression and chemo-resistance by post-transcriptionally upregulating alpha-fetoprotein expression.
      Title: AUF1 promotes hepatocellular carcinoma progression and chemo-resistance by post-transcriptionally upregulating alpha-fetoprotein expression.
    7. Circular RNA ARHGAP5 inhibits cisplatin resistance in cervical squamous cell carcinoma by interacting with AUF1.
      Title: Circular RNA ARHGAP5 inhibits cisplatin resistance in cervical squamous cell carcinoma by interacting with AUF1.
    8. Hsa_Circ_0000826 inhibits the proliferation of colorectal cancer by targeting AUF1.
      Title: Hsa_Circ_0000826 inhibits the proliferation of colorectal cancer by targeting AUF1.
    9. PUMILIO competes with AUF1 to control DICER1 RNA levels and miRNA processing.
      Title: PUMILIO competes with AUF1 to control DICER1 RNA levels and miRNA processing.
    10. The lncRNA THOR interacts with and stabilizes hnRNPD to promote cell proliferation and metastasis in breast cancer.
      Title: The lncRNA THOR interacts with and stabilizes hnRNPD to promote cell proliferation and metastasis in breast cancer.
    Submit: New GeneRIF Correction See all GeneRIFs (114)

    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)

    Genotypes

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein D (HNRNPD), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Envelope surface glycoprotein gp160, precursor env Depletion of hnRNP D decreases HIV-1 Env synthesis PubMed
    Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein D (HNRNPD), 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 D (HNRNPD), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Pr55(Gag) gag Depletion of hnRNP D reduces the accumulation of HIV-1 unspliced and singly spliced RNAs and decreases synthesis of HIV-1 Gag in the cytoplasm PubMed
    gag Overexpression of hnRNP D isoform d p37 and isoform c p40 suppress HIV-1 Gag synthesis, while overexpression of isoform a p45 and isoform b p42 increase HIV-1 Gag synthesis PubMed
    gag hnRNP D protein undergoes relocalization to the cytoplasm upon HIV-1 infection and is associated with HIV-1 Gag protein PubMed
    Rev rev HIV-1 Rev interacting protein, heterogeneous nuclear ribonucleoprotein D (HNRNPD), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with HNRNPD is increased by RRE PubMed
    Vpr vpr A stable-isotope labeling by amino acids in cell culture coupled with mass spectrometry-based proteomics identifies downregulation of heterogeneous nuclear ribonucleoprotein D (HNRNPD) expression by HIV-1 Vpr in Vpr transduced macrophages PubMed

    Go to the HIV-1, Human Interaction Database

    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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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA binding NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables chromatin binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone deacetylase binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA 3'-UTR AU-rich region binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables minor groove of adenine-thymine-rich DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables telomeric DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in 3'-UTR-mediated mRNA destabilization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in CRD-mediated mRNA stabilization IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in RNA catabolic process TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in RNA processing TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in cellular response to amino acid stimulus IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cellular response to estradiol stimulus IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cellular response to nitric oxide IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cellular response to putrescine IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cerebellum development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in circadian regulation of translation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in hepatocyte dedifferentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in liver development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of DNA-templated transcription NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in positive regulation of cytoplasmic translation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of positive regulation of telomere capping ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of positive regulation of telomere maintenance via telomerase ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of translation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in response to calcium ion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in response to electrical stimulus IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in response to rapamycin IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in response to sodium phosphate IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of mCRD-mediated mRNA stability complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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 
    located_in postsynaptic density IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    heterogeneous nuclear ribonucleoprotein D0
    Names
    ARE-binding protein AUFI, type A
    AU-rich RNA-binding factor 1
    AU-rich element RNA binding protein 1, 37kDa
    hnRNP D0

    NCBI Reference Sequences (RefSeq)

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    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_029103.1 RefSeqGene

      Range
      5006..26499
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001003810.2 → NP_001003810.1  heterogeneous nuclear ribonucleoprotein D0 isoform d

      See identical proteins and their annotated locations for NP_001003810.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks two alternate in-frame segments, compared to variant 1. The resulting isoform (d), also known as p37, is shorter than isoform a.
      Source sequence(s)
      AC124016, AF039575, BC023977, BF693760, BG180865, BG180941, BG325979, BM832779
      Consensus CDS
      CCDS93554.1
      UniProtKB/TrEMBL
      B4DTC3
      Related
      ENSP00000422615.2, ENST00000503822.2
      Conserved Domains (3) summary
      cd12583
      Location:164 → 238
      RRM2_hnRNPD; RNA recognition motif 2 (RRM2) found in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins
      pfam08143
      Location:60 → 78
      CBFNT; CBFNT (NUC161) domain
      cd12756
      Location:80 → 153
      RRM1_hnRNPD; RNA recognition motif 1 (RRM1) found in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

    2. NM_002138.4 → NP_002129.2  heterogeneous nuclear ribonucleoprotein D0 isoform c

      See identical proteins and their annotated locations for NP_002129.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame segment, compared to variant 1. The resulting isoform (c), also known as p40, is shorter than isoform a.
      Source sequence(s)
      AC124016, AF039575, BC023977, BF693760, BM825808
      Consensus CDS
      CCDS3590.1
      UniProtKB/TrEMBL
      B4DTC3
      Related
      ENSP00000313327.6, ENST00000353341.8
      Conserved Domains (3) summary
      cd12583
      Location:183 → 257
      RRM2_hnRNPD; RNA recognition motif 2 (RRM2) found in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins
      pfam08143
      Location:60 → 78
      CBFNT; CBFNT (NUC161) domain
      cd12756
      Location:99 → 172
      RRM1_hnRNPD; RNA recognition motif 1 (RRM1) found in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

    3. NM_031369.3 → NP_112737.1  heterogeneous nuclear ribonucleoprotein D0 isoform b

      See identical proteins and their annotated locations for NP_112737.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame segment, compared to variant 1. The resulting isoform (b), also known as p42, is shorter than isoform a.
      Source sequence(s)
      AC124016, AF039575, BC002401, BC023977, BF693760, BG180865, BG180941, BG325979, BM832779
      Consensus CDS
      CCDS3591.1
      UniProtKB/TrEMBL
      B4DTC3
      Related
      ENSP00000305860.6, ENST00000352301.8
      Conserved Domains (3) summary
      cd12583
      Location:164 → 238
      RRM2_hnRNPD; RNA recognition motif 2 (RRM2) found in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins
      pfam08143
      Location:60 → 78
      CBFNT; CBFNT (NUC161) domain
      cd12756
      Location:80 → 153
      RRM1_hnRNPD; RNA recognition motif 1 (RRM1) found in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

    4. NM_031370.3 → NP_112738.1  heterogeneous nuclear ribonucleoprotein D0 isoform a

      See identical proteins and their annotated locations for NP_112738.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a), also known as p45.
      Source sequence(s)
      AC124016, AF039575, BC002401, BC023977, BF693760, BG180865, BG180941, BM825808, BM832779
      Consensus CDS
      CCDS3592.1
      UniProtKB/Swiss-Prot
      A8K9J2, P07029, Q01858, Q14100, Q14101, Q14102, Q14103, Q4W5A1, Q9UCE8, Q9UCE9
      UniProtKB/TrEMBL
      B4DTC3
      Related
      ENSP00000313199.7, ENST00000313899.12
      Conserved Domains (3) summary
      cd12583
      Location:183 → 257
      RRM2_hnRNPD; RNA recognition motif 2 (RRM2) found in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins
      pfam08143
      Location:60 → 78
      CBFNT; CBFNT (NUC161) domain
      cd12756
      Location:99 → 172
      RRM1_hnRNPD; RNA recognition motif 1 (RRM1) found in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

    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_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      82352498..82373991 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      85681761..85703272 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q14103.1 GenPept UniProtKB/Swiss-Prot:Q14103

    Gene LinkOut

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