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HNRNPU heterogeneous nuclear ribonucleoprotein U [ Homo sapiens (human) ]

Gene ID: 3192, updated on 25-Jan-2022

Summary

Official Symbol
HNRNPUprovided by HGNC
Official Full Name
heterogeneous nuclear ribonucleoprotein Uprovided by HGNC
Primary source
HGNC:HGNC:5048
See related
Ensembl:ENSG00000153187 MIM:602869; AllianceGenome:HGNC:5048
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
SAFA; DEE54; HNRPU; SAF-A; U21.1; pp120; EIEE54; GRIP120; hnRNP U; HNRNPU-AS1
Summary
This gene encodes a member of a family of proteins that bind nucleic acids and function in the formation of ribonucleoprotein complexes in the nucleus with heterogeneous nuclear RNA (hnRNA). The encoded protein has affinity for both RNA and DNA, and binds scaffold-attached region (SAR) DNA. Mutations in this gene have been associated with epileptic encephalopathy, early infantile, 54. A pseudogene of this gene has been identified on chromosome 14. [provided by RefSeq, Jun 2017]
Expression
Ubiquitous expression in bone marrow (RPKM 31.0), lymph node (RPKM 28.0) and 25 other tissues See more
Orthologs
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Genomic context

See HNRNPU in Genome Data Viewer
Location:
1q44
Exon count:
14
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (244850297..244864543, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (245013599..245027845, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC112268258 Neighboring gene cytochrome c oxidase assembly factor COX20 Neighboring gene small nucleolar RNA, H/ACA box 100 Neighboring gene RN7SK pseudogene 55 Neighboring gene RNA, U6 small nuclear 947, pseudogene

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 Functions

What's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A; HNRNPU) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein U (HNRNPU), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein U (HNRNPU), 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 U (HNRNPU), 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 U (HNRNPU), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Rev rev HIV-1 Rev interacting protein, heterogeneous nuclear ribonucleoprotein U (HNRNPU), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with HNRNPU is increased by RRE PubMed
rev HIV-1 Rev interacts with the heterogeneous nuclear ribonucleoproteins (hnRNP) U. The amino acids 9-14 in Rev are required for the interaction between Rev and hnRNP U PubMed
Vpr vpr Human hnRNP U1 protein binding to splicing-incompetent U1 snRNA binding sites suffices to augment cross-exon interactions and spicing at 3'ssA2, leading to modulate HIV-1 vpr mRNA and Vpr protein expression PubMed
retropepsin gag-pol Positional proteomics analysis identifies the cleavage of human heterogeneous nuclear ribonucleoprotein U (HNRNPU: scaffold attachment factor A) at amino acid residues 255-256 and 258-259 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

Homology

Clone Names

  • FLJ30202, FLJ37978, DKFZp547G047

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA binding HDA PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables RNA polymerase II C-terminal domain binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA polymerase II C-terminal domain binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables RNA polymerase II complex binding IDA
Inferred from Direct Assay
more info
PubMed 
enables TFIIH-class transcription factor complex binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables TFIIH-class transcription factor complex binding IDA
Inferred from Direct Assay
more info
PubMed 
enables actin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables chromatin DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables double-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables double-stranded RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables identical protein binding IDA
Inferred from Direct Assay
more info
PubMed 
enables mRNA 3'-UTR binding IDA
Inferred from Direct Assay
more info
PubMed 
enables poly(A) binding IDA
Inferred from Direct Assay
more info
PubMed 
enables poly(C) RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables poly(C) RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables poly(G) binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables poly(G) binding IDA
Inferred from Direct Assay
more info
PubMed 
enables pre-mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables pre-mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables promoter-specific chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables promoter-specific chromatin binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein-containing complex binding IDA
Inferred from Direct Assay
more info
PubMed 
enables ribonucleoprotein complex binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables ribonucleoprotein complex binding IDA
Inferred from Direct Assay
more info
PubMed 
enables sequence-specific double-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables single-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables single-stranded RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables snRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables snRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables telomerase RNA binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables transcription corepressor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
Process Evidence Code Pubs
involved_in CRD-mediated mRNA stabilization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in CRD-mediated mRNA stabilization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in CRD-mediated mRNA stabilization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in RNA localization to chromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in RNA localization to chromatin ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in RNA processing TAS
Traceable Author Statement
more info
PubMed 
involved_in adaptive thermogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in cardiac muscle cell development IEA
Inferred from Electronic Annotation
more info
 
involved_in cell cycle IEA
Inferred from Electronic Annotation
more info
 
involved_in cell division IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to glucocorticoid stimulus IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cellular response to leukemia inhibitory factor ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in circadian regulation of gene expression ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in dendritic transport of messenger ribonucleoprotein complex IEA
Inferred from Electronic Annotation
more info
 
involved_in dosage compensation by inactivation of X chromosome ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in mRNA splicing, via spliceosome IC
Inferred by Curator
more info
PubMed 
involved_in mRNA stabilization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in maintenance of protein location in nucleus IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of kinase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of stem cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of stem cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of telomere maintenance via telomerase IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in negative regulation of telomere maintenance via telomerase IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of transcription elongation from RNA polymerase II promoter IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in osteoblast differentiation HDA PubMed 
involved_in positive regulation of DNA topoisomerase (ATP-hydrolyzing) activity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of attachment of mitotic spindle microtubules to kinetochore IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of attachment of mitotic spindle microtubules to kinetochore IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of brown fat cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of cytoplasmic translation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of stem cell proliferation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein localization to spindle microtubule IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of alternative mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of alternative mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of chromatin organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of chromatin organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of mitotic cell cycle IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of mitotic spindle assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of mitotic spindle assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
part_of CRD-mediated mRNA stability complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of CRD-mediated mRNA stability complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of CRD-mediated mRNA stability complex IPI
Inferred from Physical Interaction
more info
PubMed 
part_of catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in cell surface IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in centrosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in centrosome IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in cytoplasmic ribonucleoprotein granule IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytoplasmic ribonucleoprotein granule IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
PubMed 
located_in dendrite cytoplasm IEA
Inferred from Electronic Annotation
more info
 
is_active_in inactive sex chromosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in inactive sex chromosome IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in kinetochore IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in kinetochore IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane HDA PubMed 
located_in midbody IDA
Inferred from Direct Assay
more info
PubMed 
located_in mitotic spindle IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in mitotic spindle microtubule IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in mitotic spindle microtubule IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in mitotic spindle midzone IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in mitotic spindle midzone IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in nuclear chromosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nuclear chromosome IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in nuclear matrix IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nuclear matrix IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in nuclear speck IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nuclear speck IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
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 protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in spindle pole IEA
Inferred from Electronic Annotation
more info
 
part_of telomerase holoenzyme complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of telomerase holoenzyme complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
heterogeneous nuclear ribonucleoprotein U
Names
HNRNPU antisense RNA 1
heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A)
nuclear p120 ribonucleoprotein
p120 nuclear 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_042184.1 RefSeqGene

    Range
    4983..19229
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_004501.3NP_004492.2  heterogeneous nuclear ribonucleoprotein U isoform b

    See identical proteins and their annotated locations for NP_004492.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' coding region compared to variant 1, and encodes a shorter protein (isoform b).
    Source sequence(s)
    AF068846, AK095525, BC003367, BX323046
    Consensus CDS
    CCDS31081.1
    UniProtKB/Swiss-Prot
    Q00839
    Related
    ENSP00000393151.2, ENST00000444376.7
    Conserved Domains (3) summary
    smart00513
    Location:842
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd12884
    Location:269444
    SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1
    pfam13671
    Location:480624
    AAA_33; AAA domain
  2. NM_031844.3NP_114032.2  heterogeneous nuclear ribonucleoprotein U isoform a

    See identical proteins and their annotated locations for NP_114032.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (a).
    Source sequence(s)
    AF068846, AK095525, BC015782, BC024767, BX323046
    Consensus CDS
    CCDS41479.1
    UniProtKB/Swiss-Prot
    Q00839
    UniProtKB/TrEMBL
    Q96BA7
    Related
    ENSP00000491215.1, ENST00000640218.2
    Conserved Domains (3) summary
    smart00513
    Location:842
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd12884
    Location:288463
    SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1
    pfam13671
    Location:499643
    AAA_33; AAA domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    244850297..244864543 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NR_026778.1: Suppressed sequence

    Description
    NR_026778.1: This RefSeq was removed because currently there is insufficient support for the transcript.
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