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Aliases for CLEC4F Gene

Aliases for CLEC4F Gene

  • C-Type Lectin Domain Family 4 Member F 2 3 3 5
  • C-Type (Calcium Dependent, Carbohydrate-Recognition Domain) Lectin, Superfamily Member 13 2 3
  • CLECSF13 3 4
  • C-Type Lectin Domain Family 4, Member F 2
  • C-Type Lectin Superfamily Member 13 4
  • C-Type Lectin 13 4
  • KCLR 3

External Ids for CLEC4F Gene

Previous HGNC Symbols for CLEC4F Gene

  • CLECSF13

Previous GeneCards Identifiers for CLEC4F Gene

  • GC02M070948
  • GC02M070889
  • GC02M071035

Summaries for CLEC4F Gene

GeneCards Summary for CLEC4F Gene

CLEC4F (C-Type Lectin Domain Family 4 Member F) is a Protein Coding gene. Diseases associated with CLEC4F include Lacrimal Apparatus Disease and Keratoconjunctivitis Sicca. Gene Ontology (GO) annotations related to this gene include carbohydrate binding and galactose binding. An important paralog of this gene is CD207.

UniProtKB/Swiss-Prot for CLEC4F Gene

  • Receptor with an affinity for galactose and fucose. Could be involved in endocytosis (By similarity).

Additional gene information for CLEC4F Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLEC4F Gene

Genomics for CLEC4F Gene

GeneHancer (GH) Regulatory Elements for CLEC4F Gene

Promoters and enhancers for CLEC4F Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02J070820 Promoter 0.5 EPDnew 650.7 +3.1 3145 0.1 CLEC4F LOC100421925
GH02J070823 Enhancer 0.3 FANTOM5 658.8 +0.3 329 0.2 CLEC4F NAGK FIGLA LOC100421925
GH02J070291 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 41.3 +530.6 530562 4.1 CLOCK MLX ZFP64 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SNRPG CLEC4F TEX261 PCBP1-AS1 TIA1 GMCL1 CD207 PCYOX1 C2orf42 NAGK
GH02J070246 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 29.9 +575.5 575503 3.3 HDGF PKNOX1 SMAD1 FOXA2 MLX ARNT ZFP64 ARID4B SIN3A FEZF1 TIA1 C2orf42 TRG-CCC2-1 PCBP1-AS1 TEX261 GMCL1 CLEC4F ANKRD53 MPHOSPH10 CD207
GH02J071448 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 20.8 -630.3 -630337 10.3 FOXA2 PKNOX1 SIN3A YY1 ETS1 TCF12 ZFP91 FOS ATF7 ZNF263 DYSF CLEC4F ZNF638 RNU6-105P TEX261 ANKRD53 PAIP2B OR7E91P NAGK GC02P071578
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CLEC4F on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CLEC4F gene promoter:

Genomic Locations for CLEC4F Gene

Genomic Locations for CLEC4F Gene
chr2:70,808,643-70,823,764
(GRCh38/hg38)
Size:
15,122 bases
Orientation:
Minus strand
chr2:71,035,775-71,047,732
(GRCh37/hg19)

Genomic View for CLEC4F Gene

Genes around CLEC4F on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLEC4F Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLEC4F Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLEC4F Gene

Proteins for CLEC4F Gene

  • Protein details for CLEC4F Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N1N0-CLC4F_HUMAN
    Recommended name:
    C-type lectin domain family 4 member F
    Protein Accession:
    Q8N1N0
    Secondary Accessions:
    • A4QPA5

    Protein attributes for CLEC4F Gene

    Size:
    589 amino acids
    Molecular mass:
    65519 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC04786.1; Type=Erroneous termination; Positions=540; Note=Translated as Trp.; Evidence={ECO:0000305};

    Alternative splice isoforms for CLEC4F Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CLEC4F Gene

Post-translational modifications for CLEC4F Gene

  • Glycosylation at Asn399, Asn385, posLast=312312, Asn244, posLast=230230, Asn207, posLast=113113, and posLast=7979
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CLEC4F Gene

Domains & Families for CLEC4F Gene

Gene Families for CLEC4F Gene

Protein Domains for CLEC4F Gene

Suggested Antigen Peptide Sequences for CLEC4F Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CLEC4F: view

No data available for UniProtKB/Swiss-Prot for CLEC4F Gene

Function for CLEC4F Gene

Molecular function for CLEC4F Gene

UniProtKB/Swiss-Prot Function:
Receptor with an affinity for galactose and fucose. Could be involved in endocytosis (By similarity).

Phenotypes From GWAS Catalog for CLEC4F Gene

Gene Ontology (GO) - Molecular Function for CLEC4F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030246 carbohydrate binding IEA --
genes like me logo Genes that share ontologies with CLEC4F: view
genes like me logo Genes that share phenotypes with CLEC4F: view

Animal Models for CLEC4F Gene

MGI Knock Outs for CLEC4F:

Animal Model Products

  • Taconic Biosciences Mouse Models for CLEC4F

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for CLEC4F Gene

Localization for CLEC4F Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLEC4F Gene

Membrane; Single-pass type II membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CLEC4F gene
Compartment Confidence
plasma membrane 3
extracellular 1
mitochondrion 1
nucleus 1
cytosol 1

Gene Ontology (GO) - Cellular Components for CLEC4F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CLEC4F: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CLEC4F Gene

Pathways & Interactions for CLEC4F Gene

SuperPathways for CLEC4F Gene

No Data Available

Interacting Proteins for CLEC4F Gene

Gene Ontology (GO) - Biological Process for CLEC4F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006897 endocytosis IEA --
genes like me logo Genes that share ontologies with CLEC4F: view

No data available for Pathways by source and SIGNOR curated interactions for CLEC4F Gene

Drugs & Compounds for CLEC4F Gene

No Compound Related Data Available

Transcripts for CLEC4F Gene

mRNA/cDNA for CLEC4F Gene

(8) Selected AceView cDNA sequences:
(4) Additional mRNA sequences :
(12) REFSEQ mRNAs :
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CLEC4F Gene

C-type lectin domain family 4, member F:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLEC4F Gene

No ASD Table

Relevant External Links for CLEC4F Gene

GeneLoc Exon Structure for
CLEC4F
ECgene alternative splicing isoforms for
CLEC4F

Expression for CLEC4F Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CLEC4F Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLEC4F Gene

This gene is overexpressed in Spleen (x5.9) and Uterus (x4.7).

Protein differential expression in normal tissues from HIPED for CLEC4F Gene

This gene is overexpressed in Liver (67.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CLEC4F Gene



Protein tissue co-expression partners for CLEC4F Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CLEC4F Gene:

CLEC4F

SOURCE GeneReport for Unigene cluster for CLEC4F Gene:

Hs.681239

Evidence on tissue expression from TISSUES for CLEC4F Gene

  • Eye(4.6)
genes like me logo Genes that share expression patterns with CLEC4F: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CLEC4F Gene

Orthologs for CLEC4F Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLEC4F Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CLEC4F 34 33
  • 97.27 (n)
OneToOne
cow
(Bos Taurus)
Mammalia CLEC4F 34 33
  • 76.53 (n)
OneToOne
dog
(Canis familiaris)
Mammalia CLEC4F 34 33
  • 76.47 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Clec4f 16 34 33
  • 69.33 (n)
rat
(Rattus norvegicus)
Mammalia Clec4f 33
  • 67.62 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 49 (a)
ManyToMany
-- 34
  • 39 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia CLEC4F 34
  • 38 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 30 (a)
ManyToMany
-- 34
  • 29 (a)
ManyToMany
-- 34
  • 24 (a)
ManyToMany
-- 34
  • 19 (a)
ManyToMany
zebrafish
(Danio rerio)
Actinopterygii CD207 34
  • 17 (a)
OneToMany
Species where no ortholog for CLEC4F was found in the sources mined by GeneCards:
  • 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)
  • 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)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CLEC4F Gene

ENSEMBL:
Gene Tree for CLEC4F (if available)
TreeFam:
Gene Tree for CLEC4F (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CLEC4F: view image

Paralogs for CLEC4F Gene

Paralogs for CLEC4F Gene

(1) SIMAP similar genes for CLEC4F Gene using alignment to 3 proteins:

  • CLC4F_HUMAN
  • A4QPA5_HUMAN
  • B7ZMM1_HUMAN
genes like me logo Genes that share paralogs with CLEC4F: view

Variants for CLEC4F Gene

Sequence variations from dbSNP and Humsavar for CLEC4F Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000251645 -- 70,813,083(-) G/A intron_variant
rs1000832503 -- 70,823,597(-) C/T 5_prime_UTR_variant, genic_upstream_transcript_variant, intron_variant
rs1001022832 -- 70,818,042(-) C/A intron_variant
rs1001317550 -- 70,826,465(-) C/A upstream_transcript_variant
rs1001687744 -- 70,815,573(-) A/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CLEC4F Gene

Variant ID Type Subtype PubMed ID
esv2762674 CNV gain 21179565
nsv1146915 OTHER inversion 26484159
nsv458130 CNV loss 19166990
nsv582193 CNV loss 21841781
nsv961756 CNV deletion 23825009
nsv961788 CNV duplication 23825009

Variation tolerance for CLEC4F Gene

Residual Variation Intolerance Score: 98.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 11.56; 93.02% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CLEC4F Gene

Human Gene Mutation Database (HGMD)
CLEC4F
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CLEC4F

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLEC4F Gene

Disorders for CLEC4F Gene

MalaCards: The human disease database

(2) MalaCards diseases for CLEC4F Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
lacrimal apparatus disease
  • lacrimal apparatus diseases
keratoconjunctivitis sicca
  • kcs
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for CLEC4F

genes like me logo Genes that share disorders with CLEC4F: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CLEC4F Gene

Publications for CLEC4F Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  2. Normalization and subtraction: two approaches to facilitate gene discovery. (PMID: 8889548) Bonaldo MF … Soares MB (Genome research 1996) 2 3 58
  3. Structure of the gene for a carbohydrate-binding receptor unique to rat kupffer cells. (PMID: 1846367) Hoyle GW … Hill RL (The Journal of biological chemistry 1991) 2 3 58
  4. Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris. (PMID: 24927181) Navarini AA … Barker JN (Nature communications 2014) 3 58
  5. A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration. (PMID: 16713569) Lim J … Zoghbi HY (Cell 2006) 3 58

Products for CLEC4F Gene

Sources for CLEC4F Gene

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