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HNRNPF heterogeneous nuclear ribonucleoprotein F [ Homo sapiens (human) ]

Gene ID: 3185, updated on 16-Sep-2019

Summary

Official Symbol
HNRNPFprovided by HGNC
Official Full Name
heterogeneous nuclear ribonucleoprotein Fprovided by HGNC
Primary source
HGNC:HGNC:5039
See related
Ensembl:ENSG00000169813 MIM:601037
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
HNRPF; mcs94-1; OK/SW-cl.23
Summary
This gene belongs to the subfamily of ubiquitously expressed heterogeneous nuclear ribonucleoproteins (hnRNPs). The hnRNPs are RNA binding proteins that complex with heterogeneous nuclear RNA (hnRNA). These proteins are associated with pre-mRNAs in the nucleus and regulate alternative splicing, polyadenylation, 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 three repeats of quasi-RRM domains that bind to RNAs which have guanosine-rich sequences. This protein is very similar to the family member hnRPH. Multiple alternatively spliced variants, encoding the same protein, have been identified. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in lymph node (RPKM 61.3), appendix (RPKM 55.5) and 25 other tissues See more
Orthologs

Genomic context

See HNRNPF in Genome Data Viewer
Location:
10q11.21
Exon count:
7
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 10 NC_000010.11 (43385617..43409248, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (43881065..43904696, complement)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105378271 Neighboring gene uncharacterized LOC107984226 Neighboring gene FXYD domain containing ion transport regulator 4 Neighboring gene small nucleolar RNA, C/D box 3J Neighboring gene zinc finger protein 487 Neighboring gene RNA, U7 small nuclear 193 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 F (HNRNPF) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein F (HNRNPF), 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 F (HNRNPF), 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 F (HNRNPF), 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 F (HNRNPF), 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 F (HNRNPF), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with HNRNPF is increased by RRE PubMed
Tat tat HIV-1 Tat complexes with LARP7, MEPCE, SART3, NPM1, PPM1G, hnRNP-F, and 7SK RNA to form a Tat-7SK RNP complex to control HIV-1 transcription PubMed
Vif vif Proteins hnRNP F, hnRNP H, and hnRNP A2/B1 bind to the intronic G run (G13-2: AGGGA) to regulate the levels of vif and vpr mRNA, and the amounts of Vif and Vpr protein expression PubMed
vif Proteins hnRNP F, hnRNP H, and hnRNP A2/B1 bind to the intronic G run (G12-1: AGGGA) to regulate the levels of vif mRNA and Vif protein expression PubMed
Vpr vpr Proteins hnRNP F, hnRNP H, and hnRNP A2/B1 bind to the intronic G run (G13-2: AGGGA) to regulate the levels of vif and vpr mRNA, and the amounts of Vif and Vpr protein expression PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • FGFR2 alternative splicing, organism-specific biosystem (from REACTOME)
    FGFR2 alternative splicing, organism-specific biosystemAlternative splicing of the FGFR2 nascent mRNA generates an epithelial specific isoform (FGFR2 IIIb) and a mesenchymal specific isoform (FGFR2 IIIc). The inclusion of exon 8 in FGFR2 IIIb or exon 9 ...
  • 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...
  • MECP2 and Associated Rett Syndrome, organism-specific biosystem (from WikiPathways)
    MECP2 and Associated Rett Syndrome, organism-specific biosystemMecp2 is in many mammals an important regulator of neuronal function and development. It affects all cell types, especially neurons but also astrocytes, oligodendrocytes, and glial cells. Mecp2 plays...
  • 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...
  • Signal Transduction, organism-specific biosystem (from REACTOME)
    Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
  • Signaling by FGFR, organism-specific biosystem (from REACTOME)
    Signaling by FGFR, organism-specific biosystemThe 22 members of the fibroblast growth factor (FGF) family of growth factors mediate their cellular responses by binding to and activating the different isoforms encoded by the four receptor tyrosin...
  • Signaling by FGFR2, organism-specific biosystem (from REACTOME)
    Signaling by FGFR2, organism-specific biosystemThe 22 members of the fibroblast growth factor (FGF) family of growth factors mediate their cellular responses by binding to and activating the different isoforms encoded by the four receptor tyrosin...
  • 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...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC110997

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
TBP-class protein binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
single-stranded RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
RNA metabolic process TAS
Traceable Author Statement
more info
 
RNA processing TAS
Traceable Author Statement
more info
PubMed 
fibroblast growth factor receptor signaling pathway TAS
Traceable Author Statement
more info
 
interleukin-12-mediated signaling pathway TAS
Traceable Author Statement
more info
 
mRNA splicing, via spliceosome IC
Inferred by Curator
more info
PubMed 
mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
regulation of RNA splicing IDA
Inferred from Direct Assay
more info
PubMed 
regulation of RNA splicing IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
membrane HDA PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus TAS
Traceable Author Statement
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
heterogeneous nuclear ribonucleoprotein F
Names
HnRNP F protein
nucleolin-like protein mcs94-1

NCBI Reference Sequences (RefSeq)

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_001098204.1NP_001091674.1  heterogeneous nuclear ribonucleoprotein F

    See identical proteins and their annotated locations for NP_001091674.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1-6 encode the same protein.
    Source sequence(s)
    AI133166, AW069399, BC001432, BC015580, DB049909
    Consensus CDS
    CCDS7204.1
    UniProtKB/Swiss-Prot
    P52597
    UniProtKB/TrEMBL
    A0A024R7T3
    Conserved Domains (4) summary
    cd12506
    Location:289363
    RRM3_hnRNPH_CRSF1_like; RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein hnRNP H protein family, G-rich sequence factor 1 (GRSF-1) and similar proteins
    cd12729
    Location:1088
    RRM1_hnRNPH_hnRNPH2_hnRNPF; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP H , hnRNP H2, hnRNP F and similar proteins
    pfam08080
    Location:255290
    zf-RNPHF; RNPHF zinc finger
    cl17169
    Location:93188
    RRM_SF; RNA recognition motif (RRM) superfamily
  2. NM_001098205.1NP_001091675.1  heterogeneous nuclear ribonucleoprotein F

    See identical proteins and their annotated locations for NP_001091675.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR, compared to variant 1. Variants 1-6 encode the same protein.
    Source sequence(s)
    AI133166, AK001364, AW069399, BC001432, DA535143
    Consensus CDS
    CCDS7204.1
    UniProtKB/Swiss-Prot
    P52597
    UniProtKB/TrEMBL
    A0A024R7T3
    Related
    ENSP00000348345.3, ENST00000356053.7
    Conserved Domains (4) summary
    cd12506
    Location:289363
    RRM3_hnRNPH_CRSF1_like; RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein hnRNP H protein family, G-rich sequence factor 1 (GRSF-1) and similar proteins
    cd12729
    Location:1088
    RRM1_hnRNPH_hnRNPH2_hnRNPF; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP H , hnRNP H2, hnRNP F and similar proteins
    pfam08080
    Location:255290
    zf-RNPHF; RNPHF zinc finger
    cl17169
    Location:93188
    RRM_SF; RNA recognition motif (RRM) superfamily
  3. NM_001098206.1NP_001091676.1  heterogeneous nuclear ribonucleoprotein F

    See identical proteins and their annotated locations for NP_001091676.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, compared to variant 1. Variants 1-6 encode the same protein.
    Source sequence(s)
    AI133166, AL542769, AW069399, BC001432, BC016736, DB011453
    Consensus CDS
    CCDS7204.1
    UniProtKB/Swiss-Prot
    P52597
    UniProtKB/TrEMBL
    A0A024R7T3
    Related
    ENSP00000349573.4, ENST00000357065.8
    Conserved Domains (4) summary
    cd12506
    Location:289363
    RRM3_hnRNPH_CRSF1_like; RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein hnRNP H protein family, G-rich sequence factor 1 (GRSF-1) and similar proteins
    cd12729
    Location:1088
    RRM1_hnRNPH_hnRNPH2_hnRNPF; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP H , hnRNP H2, hnRNP F and similar proteins
    pfam08080
    Location:255290
    zf-RNPHF; RNPHF zinc finger
    cl17169
    Location:93188
    RRM_SF; RNA recognition motif (RRM) superfamily
  4. NM_001098207.1NP_001091677.1  heterogeneous nuclear ribonucleoprotein F

    See identical proteins and their annotated locations for NP_001091677.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR, compared to variant 1. Variants 1-6 encode the same protein.
    Source sequence(s)
    AI133166, AW069399, BC001432, BC106008, DA679417
    Consensus CDS
    CCDS7204.1
    UniProtKB/Swiss-Prot
    P52597
    UniProtKB/TrEMBL
    A0A024R7T3
    Related
    ENSP00000438061.1, ENST00000544000.5
    Conserved Domains (4) summary
    cd12506
    Location:289363
    RRM3_hnRNPH_CRSF1_like; RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein hnRNP H protein family, G-rich sequence factor 1 (GRSF-1) and similar proteins
    cd12729
    Location:1088
    RRM1_hnRNPH_hnRNPH2_hnRNPF; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP H , hnRNP H2, hnRNP F and similar proteins
    pfam08080
    Location:255290
    zf-RNPHF; RNPHF zinc finger
    cl17169
    Location:93188
    RRM_SF; RNA recognition motif (RRM) superfamily
  5. NM_001098208.1NP_001091678.1  heterogeneous nuclear ribonucleoprotein F

    See identical proteins and their annotated locations for NP_001091678.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1-6 encode the same protein.
    Source sequence(s)
    AI133166, AW069399, BC001432, CR976524
    Consensus CDS
    CCDS7204.1
    UniProtKB/Swiss-Prot
    P52597
    UniProtKB/TrEMBL
    A0A024R7T3
    Related
    ENSP00000400433.2, ENST00000443950.6
    Conserved Domains (4) summary
    cd12506
    Location:289363
    RRM3_hnRNPH_CRSF1_like; RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein hnRNP H protein family, G-rich sequence factor 1 (GRSF-1) and similar proteins
    cd12729
    Location:1088
    RRM1_hnRNPH_hnRNPH2_hnRNPF; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP H , hnRNP H2, hnRNP F and similar proteins
    pfam08080
    Location:255290
    zf-RNPHF; RNPHF zinc finger
    cl17169
    Location:93188
    RRM_SF; RNA recognition motif (RRM) superfamily
  6. NM_004966.3NP_004957.1  heterogeneous nuclear ribonucleoprotein F

    See identical proteins and their annotated locations for NP_004957.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1-6 encode the same protein.
    Source sequence(s)
    AI133166, AW069399, BC001432, BC004254, DA594075
    Consensus CDS
    CCDS7204.1
    UniProtKB/Swiss-Prot
    P52597
    UniProtKB/TrEMBL
    A0A024R7T3
    Related
    ENSP00000338477.3, ENST00000337970.7
    Conserved Domains (4) summary
    cd12506
    Location:289363
    RRM3_hnRNPH_CRSF1_like; RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein hnRNP H protein family, G-rich sequence factor 1 (GRSF-1) and similar proteins
    cd12729
    Location:1088
    RRM1_hnRNPH_hnRNPH2_hnRNPF; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP H , hnRNP H2, hnRNP F and similar proteins
    pfam08080
    Location:255290
    zf-RNPHF; RNPHF zinc finger
    cl17169
    Location:93188
    RRM_SF; RNA recognition motif (RRM) superfamily

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p13 Primary Assembly

    Range
    43385617..43409248 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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