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Aliases for HNRNPU Gene

Aliases for HNRNPU Gene

  • Heterogeneous Nuclear Ribonucleoprotein U (Scaffold Attachment Factor A) 2 3
  • Scaffold Attachment Factor A 3 4
  • HnRNP U 3 4
  • HNRPU 3 4
  • SAF-A 3 4
  • U21.1 3 4
  • Pp120 3 4
  • Heterogeneous Nuclear Ribonucleoprotein U 3
  • P120 Nuclear Protein 3
  • P120 4
  • SAFA 4

External Ids for HNRNPU Gene

Previous HGNC Symbols for HNRNPU Gene


Previous GeneCards Identifiers for HNRNPU Gene

  • GC01M243081
  • GC01M245013
  • GC01M215396

Summaries for HNRNPU Gene

Entrez Gene Summary for HNRNPU Gene

  • This gene belongs to the subfamily of ubiquitously expressed heterogeneous nuclear ribonucleoproteins (hnRNPs). The hnRNPs are RNA binding proteins and they form complexes 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 contains a RNA binding domain and scaffold-associated region (SAR)-specific bipartite DNA-binding domain. This protein is also thought to be involved in the packaging of hnRNA into large ribonucleoprotein complexes. During apoptosis, this protein is cleaved in a caspase-dependent way. Cleavage occurs at the SALD site, resulting in a loss of DNA-binding activity and a concomitant detachment of this protein from nuclear structural sites. But this cleavage does not affect the function of the encoded protein in RNA metabolism. At least two alternatively spliced transcript variants have been identified for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for HNRNPU Gene

HNRNPU (Heterogeneous Nuclear Ribonucleoprotein U (Scaffold Attachment Factor A)) is a Protein Coding gene. Diseases associated with HNRNPU include diffuse gastric cancer. Among its related pathways are Gene Expression and Spliceosome. GO annotations related to this gene include RNA binding. An important paralog of this gene is HNRNPUL2-BSCL2.

UniProtKB/Swiss-Prot for HNRNPU Gene

  • Component of the CRD-mediated complex that promotes MYC mRNA stabilization. Binds to pre-mRNA. Has high affinity for scaffold-attached region (SAR) DNA. Binds to double- and single-stranded DNA and RNA. Plays a role in the circadian regulation of the core clock component ARNTL/BMAL1 transcription (By similarity).

Gene Wiki entry for HNRNPU Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HNRNPU Gene

Genomics for HNRNPU Gene

Regulatory Elements for HNRNPU Gene

Transcription factor binding sites by QIAGEN in the HNRNPU gene promoter:

Genomic Location for HNRNPU Gene

244,850,300 bp from pter
244,864,542 bp from pter
14,243 bases
Minus strand

Genomic View for HNRNPU Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for HNRNPU Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HNRNPU Gene

Proteins for HNRNPU Gene

  • Protein details for HNRNPU Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Heterogeneous nuclear ribonucleoprotein U
    Protein Accession:
    Secondary Accessions:
    • O75507
    • Q8N174
    • Q96HY9
    • Q9BQ09

    Protein attributes for HNRNPU Gene

    825 amino acids
    Molecular mass:
    90584 Da
    Quaternary structure:
    • Identified in the spliceosome C complex. Component of the coding region determinant (CRD)-mediated complex, composed of DHX9, HNRNPU, IGF2BP1, SYNCRIP and YBX1. Identified in a IGF2BP1-dependent mRNP granule complex containing untranslated mRNAs. Interacts with IGF2BP1, IGF2BP2, IGF2BP3 and ERBB4. Ligand for CR2. Interacts with CRY1 (By similarity). Interacts with UBQLN2 (PubMed:25616961).
    • Sequence=AAC19382.1; Type=Miscellaneous discrepancy; Note=Aberrant splicing.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for HNRNPU Gene

    Alternative splice isoforms for HNRNPU Gene


neXtProt entry for HNRNPU Gene

Proteomics data for HNRNPU Gene at MOPED

Post-translational modifications for HNRNPU Gene

  • Arg-739 is dimethylated, probably to asymmetric dimethylarginine.
  • Citrullinated by PADI4.
  • Extensively phosphorylated.
  • Ubiquitination at Lys9, Lys186, Lys265, Lys352, Lys464, Lys516, Lys524, Lys536, Lys544, Lys551, Lys565, Lys602, Lys635, Lys664, and Lys814
  • Modification sites at PhosphoSitePlus

Other Protein References for HNRNPU Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for HNRNPU Gene

Domains for HNRNPU Gene

Protein Domains for HNRNPU Gene

Graphical View of Domain Structure for InterPro Entry



  • Q00839
  • Contains 1 B30.2/SPRY domain.
  • Contains 1 SAP domain.
genes like me logo Genes that share domains with HNRNPU: view

No data available for Gene Families for HNRNPU Gene

Function for HNRNPU Gene

Molecular function for HNRNPU Gene

UniProtKB/Swiss-Prot Function: Component of the CRD-mediated complex that promotes MYC mRNA stabilization. Binds to pre-mRNA. Has high affinity for scaffold-attached region (SAR) DNA. Binds to double- and single-stranded DNA and RNA. Plays a role in the circadian regulation of the core clock component ARNTL/BMAL1 transcription (By similarity).

Gene Ontology (GO) - Molecular Function for HNRNPU Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001047 core promoter binding ISS --
GO:0003677 DNA binding TAS 1628625
GO:0003723 RNA binding TAS 1628625
GO:0005515 protein binding IPI 17289661
GO:0005524 ATP binding IEA --
genes like me logo Genes that share ontologies with HNRNPU: view
genes like me logo Genes that share phenotypes with HNRNPU: view

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for HNRNPU Gene

Localization for HNRNPU Gene

Subcellular locations from UniProtKB/Swiss-Prot for HNRNPU Gene

Nucleus. Cytoplasm. Cell surface. Note=Localized in cytoplasmic mRNP granules containing untranslated mRNAs. Component of ribonucleosomes. {ECO:0000269 PubMed:17289661}.

Subcellular locations from

Jensen Localization Image for HNRNPU Gene COMPARTMENTS Subcellular localization image for HNRNPU gene
Compartment Confidence
nucleus 5
cytoskeleton 3
cytosol 2
golgi apparatus 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for HNRNPU Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 22720776
GO:0005654 nucleoplasm TAS --
GO:0009986 cell surface IEA --
GO:0016020 membrane IDA 16210410
GO:0030529 ribonucleoprotein complex IDA 17289661
genes like me logo Genes that share ontologies with HNRNPU: view

Pathways for HNRNPU Gene

genes like me logo Genes that share pathways with HNRNPU: view

Pathways by source for HNRNPU Gene

1 KEGG pathway for HNRNPU Gene

Gene Ontology (GO) - Biological Process for HNRNPU Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0001649 osteoblast differentiation IDA 16210410
GO:0006396 RNA processing TAS 1628625
GO:0008380 RNA splicing TAS --
GO:0010467 gene expression TAS --
genes like me logo Genes that share ontologies with HNRNPU: view

Compounds for HNRNPU Gene

(3) Novoseek inferred chemical compound relationships for HNRNPU Gene

Compound -log(P) Hits PubMed IDs
tyrosine 36.4 10
phosphotyrosine 28.8 1
heparin 0 1
genes like me logo Genes that share compounds with HNRNPU: view

Transcripts for HNRNPU Gene

Unigene Clusters for HNRNPU Gene

Heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for HNRNPU Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7a · 7b · 7c ^ 8 ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14a · 14b
SP1: - - - - -
SP2: - - - -
SP3: - - - -
SP4: -

Relevant External Links for HNRNPU Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HNRNPU Gene

mRNA expression in normal human tissues for HNRNPU Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for HNRNPU Gene

SOURCE GeneReport for Unigene cluster for HNRNPU Gene Hs.106212

genes like me logo Genes that share expressions with HNRNPU: view

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for HNRNPU Gene

Orthologs for HNRNPU Gene

This gene was present in the common ancestor of animals.

Orthologs for HNRNPU Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia HNRNPU 36
  • 99 (a)
(Bos Taurus)
Mammalia HNRNPU 35
  • 94.79 (n)
  • 98.55 (a)
  • 99 (a)
(Canis familiaris)
Mammalia HNRNPU 35
  • 94.37 (n)
  • 98.75 (a)
  • 98 (a)
(Mus musculus)
Mammalia Hnrnpu 35
  • 92.03 (n)
  • 96.87 (a)
Hnrnpu 16
Hnrnpu 36
  • 95 (a)
(Monodelphis domestica)
Mammalia HNRNPU 36
  • 90 (a)
(Ornithorhynchus anatinus)
Mammalia HNRNPU 36
  • 95 (a)
(Rattus norvegicus)
Mammalia Hnrnpu 35
  • 92.31 (n)
  • 96.74 (a)
(Gallus gallus)
Aves HNRNPU 35
  • 85.46 (n)
  • 93.72 (a)
  • 84 (a)
(Anolis carolinensis)
Reptilia HNRNPU 36
  • 74 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.8951 35
tropical clawed frog
(Silurana tropicalis)
Amphibia hnrnpu 35
  • 71.65 (n)
  • 74.67 (a)
Str.7999 35
(Danio rerio)
Actinopterygii hnrnpua 36
  • 53 (a)
hnrnpub 35
  • 65.34 (n)
  • 65.85 (a)
hnrnpub 36
  • 54 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG30122 36
  • 17 (a)
(Caenorhabditis elegans)
Secernentea Y41E3.11 36
  • 8 (a)
Species with no ortholog for HNRNPU:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for HNRNPU Gene

Gene Tree for HNRNPU (if available)
Gene Tree for HNRNPU (if available)

Paralogs for HNRNPU Gene

Paralogs for HNRNPU Gene

Selected SIMAP similar genes for HNRNPU Gene using alignment to 2 proteins: Pseudogenes for HNRNPU Gene

genes like me logo Genes that share paralogs with HNRNPU: view

Variants for HNRNPU Gene

Sequence variations from dbSNP and Humsavar for HNRNPU Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs877 -- 244,853,885(+) TGTTA(C/T)TTTAA utr-variant-3-prime
rs878 -- 244,853,868(+) AATTA(A/T)ACCAA utr-variant-3-prime
rs879 -- 244,853,815(+) CTACA(C/T)ACACT utr-variant-3-prime
rs880 -- 244,853,821(+) ACACT(A/C)CATCT utr-variant-3-prime
rs11709 -- 244,854,377(-) AGTAG(G/T)CTAAC utr-variant-3-prime

Relevant External Links for HNRNPU Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for HNRNPU Gene

Disorders for HNRNPU Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for HNRNPU Gene including...

Search for HNRNPU Gene in MalaCards »

(4) Novoseek inferred disease relationships for HNRNPU Gene

Disease -log(P) Hits PubMed IDs
leukemia 0 1
necrosis 0 3
tumors 0 6
cancer 0 1

Relevant External Links for HNRNPU

Genetic Association Database (GAD)
genes like me logo Genes that share disorders with HNRNPU: view

No data available for UniProtKB/Swiss-Prot for HNRNPU Gene

Publications for HNRNPU Gene

  1. hnRNP-U/SAF-A is encoded by two differentially polyadenylated mRNAs in human cells. (PMID: 7509195) Fackelmayer F.O. … Richter A. (Biochim. Biophys. Acta 1994) 2 3 4 23
  2. Purification of two isoforms of hnRNP-U and characterization of their nucleic acid binding activity. (PMID: 8068679) Fackelmayer F.O. … Richter A. (Biochemistry 1994) 2 3 4 23
  3. Primary structure and binding activity of the hnRNP U protein: binding RNA through RGG box. (PMID: 1628625) Kiledjian M. … Dreyfuss G. (EMBO J. 1992) 3 4 23
  4. Major cell surface-located protein substrates of an ecto-protein kinase are homologs of known nuclear proteins. (PMID: 7993898) Jordan P. … Kubler D. (Biochemistry 1994) 3 4 23
  5. The glucocorticoid receptor is associated with the RNA-binding nuclear matrix protein hnRNP U. (PMID: 9353307) Eggert M. … Renkawitz R. (J. Biol. Chem. 1997) 3 23

Products for HNRNPU Gene

Sources for HNRNPU Gene

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