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Aliases for HLA-F Gene

Aliases for HLA-F Gene

  • Major Histocompatibility Complex, Class I, F 2 3 5
  • MHC Class I Antigen F 3 4
  • Leukocyte Antigen F 3 4
  • HLA F Antigen 3 4
  • HLA-5.4 3 4
  • CDA12 3 4
  • HLAF 3 4
  • HLA Class I Molecule 3
  • MHC Class Ib Antigen 3
  • HLA-CDA12 3

External Ids for HLA-F Gene

Previous GeneCards Identifiers for HLA-F Gene

  • GC06P029748
  • GC06P029461
  • GC06P029800
  • GC06P029801
  • GC06P029802
  • GC06P029690
  • GC06P029499
  • GC06P029853
  • GC06P030080

Summaries for HLA-F Gene

Entrez Gene Summary for HLA-F Gene

  • This gene belongs to the HLA class I heavy chain paralogues. It encodes a non-classical heavy chain that forms a heterodimer with a beta-2 microglobulin light chain, with the heavy chain anchored in the membrane. Unlike most other HLA heavy chains, this molecule is localized in the endoplasmic reticulum and Golgi apparatus, with a small amount present at the cell surface in some cell types. It contains a divergent peptide-binding groove, and is thought to bind a restricted subset of peptides for immune presentation. This gene exhibits few polymorphisms. Multiple transcript variants encoding different isoforms have been found for this gene. These variants lack a coding exon found in transcripts from other HLA paralogues due to an altered splice acceptor site, resulting in a shorter cytoplasmic domain. [provided by RefSeq, Jul 2008]

GeneCards Summary for HLA-F Gene

HLA-F (Major Histocompatibility Complex, Class I, F) is a Protein Coding gene. Diseases associated with HLA-F include Hemochromatosis. Among its related pathways are HTLV-I infection and Natural Killer Cell Receptors: Human Target Cell ?�� NK Cell Ligand-Receptor Interactions. GO annotations related to this gene include receptor binding and TAP1 binding. An important paralog of this gene is HLA-B.

UniProtKB/Swiss-Prot for HLA-F Gene

  • Involved in the presentation of foreign antigens to the immune system.

Gene Wiki entry for HLA-F Gene

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

Genomics for HLA-F Gene

Regulatory Elements for HLA-F Gene

Enhancers for HLA-F Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around HLA-F on UCSC Golden Path with GeneCards custom track

Promoters for HLA-F Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around HLA-F on UCSC Golden Path with GeneCards custom track

Genomic Location for HLA-F Gene

Chromosome:
6
Start:
29,722,775 bp from pter
End:
29,740,355 bp from pter
Size:
17,581 bases
Orientation:
Plus strand

Genomic View for HLA-F Gene

Genes around HLA-F on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HLA-F Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HLA-F Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for HLA-F Gene

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

    Protein Symbol:
    P30511-HLAF_HUMAN
    Recommended name:
    HLA class I histocompatibility antigen, alpha chain F
    Protein Accession:
    P30511
    Secondary Accessions:
    • Q5JQI8
    • Q5JQJ1
    • Q5SPT5
    • Q860R0
    • Q8MGQ1
    • Q8WLP5
    • Q95HC0
    • Q9TP68

    Protein attributes for HLA-F Gene

    Size:
    346 amino acids
    Molecular mass:
    39062 Da
    Quaternary structure:
    • Heterodimer of an alpha chain and a beta chain (beta-2-microglobulin).
    SequenceCaution:
    • Sequence=AAC24827.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=AAH09260.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=BAB63337.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=CAA34947.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=CAB46623.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for HLA-F Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for HLA-F Gene

Proteomics data for HLA-F Gene at MOPED

Post-translational modifications for HLA-F Gene

No data available for DME Specific Peptides for HLA-F Gene

Domains & Families for HLA-F Gene

Graphical View of Domain Structure for InterPro Entry

P30511

UniProtKB/Swiss-Prot:

HLAF_HUMAN :
  • Contains 1 Ig-like C1-type (immunoglobulin-like) domain.
  • Belongs to the MHC class I family.
Domain:
  • Contains 1 Ig-like C1-type (immunoglobulin-like) domain.
Family:
  • Belongs to the MHC class I family.
genes like me logo Genes that share domains with HLA-F: view

Function for HLA-F Gene

Molecular function for HLA-F Gene

GENATLAS Biochemistry:
HLA class Ib,44kDa,5.4kb HindIII fragment,TAP and tapasin dependent,expression at the cell surface,correlating with the binding of an MHC class I leader peptide (see MHC1)
UniProtKB/Swiss-Prot Function:
Involved in the presentation of foreign antigens to the immune system.

Gene Ontology (GO) - Molecular Function for HLA-F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0046978 TAP1 binding IPI 10605026
genes like me logo Genes that share ontologies with HLA-F: view

Phenotypes for HLA-F Gene

GenomeRNAi human phenotypes for HLA-F:
genes like me logo Genes that share phenotypes with HLA-F: view

Animal Model Products

CRISPR Products

miRNA for HLA-F Gene

miRTarBase miRNAs that target HLA-F

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HLA-F Gene

Localization for HLA-F Gene

Subcellular locations from UniProtKB/Swiss-Prot for HLA-F Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for HLA-F Gene COMPARTMENTS Subcellular localization image for HLA-F gene
Compartment Confidence
plasma membrane 3
extracellular 2
cytosol 1
endoplasmic reticulum 1
golgi apparatus 1
lysosome 1
mitochondrion 1
vacuole 1

Gene Ontology (GO) - Cellular Components for HLA-F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0012507 ER to Golgi transport vesicle membrane TAS --
genes like me logo Genes that share ontologies with HLA-F: view

Pathways & Interactions for HLA-F Gene

genes like me logo Genes that share pathways with HLA-F: view

Gene Ontology (GO) - Biological Process for HLA-F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0060333 interferon-gamma-mediated signaling pathway TAS --
genes like me logo Genes that share ontologies with HLA-F: view

No data available for SIGNOR curated interactions for HLA-F Gene

Drugs & Compounds for HLA-F Gene

No Compound Related Data Available

Transcripts for HLA-F Gene

Unigene Clusters for HLA-F Gene

Major histocompatibility complex, class I, F:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for HLA-F Gene

No ASD Table

Relevant External Links for HLA-F Gene

GeneLoc Exon Structure for
HLA-F
ECgene alternative splicing isoforms for
HLA-F

Expression for HLA-F Gene

mRNA expression in normal human tissues for HLA-F Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HLA-F Gene

This gene is overexpressed in Whole Blood (x9.1) and Spleen (x5.5).

Protein differential expression in normal tissues from HIPED for HLA-F Gene

This gene is overexpressed in Peripheral blood mononuclear cells (18.4), Skin (13.0), NK cells (8.9), and CD8 Tcells (7.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for HLA-F Gene



SOURCE GeneReport for Unigene cluster for HLA-F Gene Hs.519972

genes like me logo Genes that share expression patterns with HLA-F: view

Protein tissue co-expression partners for HLA-F Gene

- Elite partner

No data available for mRNA Expression by UniProt/SwissProt for HLA-F Gene

Orthologs for HLA-F Gene

This gene was present in the common ancestor of mammals.

Orthologs for HLA-F Gene

Organism Taxonomy Gene Similarity Type Details
dog
(Canis familiaris)
Mammalia DLA-79 35
  • 77.47 (n)
  • 66.36 (a)
mouse
(Mus musculus)
Mammalia Gm7030 35
  • 74.52 (n)
  • 67.57 (a)
Gm7030 16
chimpanzee
(Pan troglodytes)
Mammalia PATR-F 35
  • 98.16 (n)
  • 97.97 (a)
PATR-AL 36
  • 72 (a)
ManyToMany
Species with no ortholog for HLA-F:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for HLA-F Gene

ENSEMBL:
Gene Tree for HLA-F (if available)
TreeFam:
Gene Tree for HLA-F (if available)

Paralogs for HLA-F Gene

Paralogs for HLA-F Gene

genes like me logo Genes that share paralogs with HLA-F: view

Variants for HLA-F Gene

Sequence variations from dbSNP and Humsavar for HLA-F Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1736924 - 29,725,234(-) TCCAG(A/G)AGGCA intron-variant, reference, missense
rs17875379 - 29,723,501(+) AGGGG(C/T)CCTGG reference, missense
rs17875380 - 29,723,805(+) GGAGC(A/C)GTGGG reference, missense
rs5875203 -- 29,724,940(+) CCCCA(-/G)GTGTC intron-variant
rs1362125 -- 29,723,313(-) CAGGA(A/T)GAAGG upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for HLA-F Gene

Variant ID Type Subtype PubMed ID
esv25966 CNV Gain+Loss 19812545
nsv428139 CNV Gain 18775914
nsv508397 CNV Loss 20534489
dgv1039e201 CNV Deletion 23290073
nsv462673 CNV Loss 19166990
nsv883531 CNV Loss 21882294
nsv10809 CNV Gain 18304495

Variation tolerance for HLA-F Gene

Residual Variation Intolerance Score: 79.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.80; 83.39% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for HLA-F Gene

Disorders for HLA-F Gene

MalaCards: The human disease database

(1) MalaCards diseases for HLA-F Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
hemochromatosis
  • hfe hemochromatosis, modifier of
- elite association - COSMIC cancer census association via MalaCards
Search HLA-F in MalaCards View complete list of genes associated with diseases

Relevant External Links for HLA-F

Genetic Association Database (GAD)
HLA-F
Human Genome Epidemiology (HuGE) Navigator
HLA-F
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HLA-F
genes like me logo Genes that share disorders with HLA-F: view

No data available for UniProtKB/Swiss-Prot and Genatlas for HLA-F Gene

Publications for HLA-F Gene

  1. Human leukocyte antigen F (HLA-F). An expressed HLA gene composed of a class I coding sequence linked to a novel transcribed repetitive element. (PMID: 1688605) Geraghty D.E. … Koller B.H. (J. Exp. Med. 1990) 2 3 4 23 67
  2. Genetic associations of common deletion polymorphisms in families with Avellino corneal dystrophy. (PMID: 19622345) Park M. … Kim H.L. (Biochem. Biophys. Res. Commun. 2009) 3 23
  3. SNP mapping and candidate gene sequencing in the class I region of the HLA complex: searching for multiple sclerosis susceptibility genes in Tasmanians. (PMID: 17971048) Burfoot R.K. … Rubio J.P. (Tissue Antigens 2008) 3 23
  4. HLA-E, HLA-F, and HLA-G polymorphism: genomic sequence defines haplotype structure and variation spanning the nonclassical class I genes. (PMID: 16570139) Pyo C.W. … Geraghty D.E. (Immunogenetics 2006) 3 23
  5. MHC-F DNA sequences in bonobo, gorilla and orangutan. (PMID: 16185322) Rojo R. … Arnaiz-Villena A. (Tissue Antigens 2005) 3 23

Products for HLA-F Gene

Sources for HLA-F Gene

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