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Aliases for SEMA4F Gene

Aliases for SEMA4F Gene

  • Ssemaphorin 4F 2 3 5
  • Sema Domain, Immunoglobulin Domain (Ig), Transmembrane Domain (TM) And Short Cytoplasmic Domain, (Semaphorin) 4F 2 3
  • Semaphorin-W 3 4
  • SEMAM 3 4
  • SEMAW 3 4
  • Sema Domain Immunoglobulin Domain Transmembrane Domain (TM) And Short Cytoplasmic Domain (Semaphorin) 4F 3
  • Semaphorin-4F 3
  • Semaphorin M 3
  • Semaphorin-M 4
  • M-Sema-M 3
  • M-Sema M 2
  • PRO2353 3
  • M-SEMA 3
  • Sema M 4
  • Sema W 4
  • S4F 3

External Ids for SEMA4F Gene

Previous HGNC Symbols for SEMA4F Gene


Previous GeneCards Identifiers for SEMA4F Gene

  • GC01P099863
  • GC02P075094
  • GC02P074839
  • GC02P074855
  • GC02P074793
  • GC02P074618

Summaries for SEMA4F Gene

Entrez Gene Summary for SEMA4F Gene

  • This gene encodes a transmembrane class IV semaphorin family protein, which plays a role in neural development. This gene may be involved in neurogenesis in prostate cancer, the development of neurofibromas, and breast cancer tumorigenesis. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2012]

GeneCards Summary for SEMA4F Gene

SEMA4F (Ssemaphorin 4F) is a Protein Coding gene. Diseases associated with SEMA4F include Dyslexia. Among its related pathways are Axon guidance. An important paralog of this gene is SEMA4B.

UniProtKB/Swiss-Prot for SEMA4F Gene

  • Has growth cone collapse activity against retinal ganglion-cell axons.

Gene Wiki entry for SEMA4F Gene

Additional gene information for SEMA4F Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SEMA4F Gene

Genomics for SEMA4F Gene

GeneHancer (GH) Regulatory Elements for SEMA4F Gene

Promoters and enhancers for SEMA4F Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02J074653 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 662.6 0.0 -27 1.2 PKNOX1 ATF1 GLI4 ZNF2 YY1 SLC30A9 KLF7 FOS ATF7 SP3 SEMA4F GC02P074655 DCTN1 WDR54
GH02J074196 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 22.1 -455.5 -455481 3.9 CLOCK FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 ENSG00000279070 MTHFD2 PCGF1 ENSG00000273245 INO80B DUSP11 ALMS1 HTRA2 WBP1 AUP1
GH02J074739 Enhancer 1.4 FANTOM5 Ensembl ENCODE 16.6 +86.8 86788 3.6 PKNOX1 CLOCK MLX ARID4B SIN3A DMAP1 BRCA1 ZNF48 ETS1 GTF3C2 MOGS SEMA4F DUSP11 PCGF1 AUP1 ENSG00000273245 TTC31 DGUOK-AS1 CCDC142 M1AP
GH02J074528 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 9.4 -123.9 -123903 4.4 DMAP1 IRF4 YY1 SLC30A9 E2F8 ZNF143 SP3 NFYC GLIS1 NBN AUP1 HTRA2 LBX2 TTC31 CCDC142 PCGF1 DUSP11 MOB1A MOGS MTHFD2
GH02J074842 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 9.9 +193.4 193376 10 FOXA2 ZFP64 ARID4B NEUROD1 SIN3A ETS1 ATF7 FOS RUNX3 DEK HK2 SEMA4F M1AP ENSG00000236209 LINC01293 LBX2 GC02M074813 GC02M074860
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SEMA4F on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SEMA4F gene promoter:
  • FOXO4
  • COUP
  • HNF-4alpha2
  • HNF-4alpha1
  • COUP-TF1
  • Tal-1
  • Pax-5
  • AML1a

Genomic Locations for SEMA4F Gene

Genomic Locations for SEMA4F Gene
40,670 bases
Plus strand
27,832 bases
Plus strand

Genomic View for SEMA4F Gene

Genes around SEMA4F on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SEMA4F Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SEMA4F Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SEMA4F Gene

Proteins for SEMA4F Gene

  • Protein details for SEMA4F Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • Q542Y7
    • Q9NS35

    Protein attributes for SEMA4F Gene

    770 amino acids
    Molecular mass:
    83511 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SEMA4F Gene


neXtProt entry for SEMA4F Gene

Post-translational modifications for SEMA4F Gene

  • Glycosylation at isoforms=2509, isoforms=133, and posLast=6464
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SEMA4F Gene

Domains & Families for SEMA4F Gene

Gene Families for SEMA4F Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Predicted secreted proteins

Suggested Antigen Peptide Sequences for SEMA4F Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the semaphorin family.
  • Belongs to the semaphorin family.
genes like me logo Genes that share domains with SEMA4F: view

Function for SEMA4F Gene

Molecular function for SEMA4F Gene

UniProtKB/Swiss-Prot Function:
Has growth cone collapse activity against retinal ganglion-cell axons.
GENATLAS Biochemistry:
semaphorin 4F,expressed at low levels in the developing embryo and at high levels in the adult central nervous system and lung,repellent of the nerve growth cone guidance

Phenotypes From GWAS Catalog for SEMA4F Gene

Gene Ontology (GO) - Molecular Function for SEMA4F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030215 semaphorin receptor binding IBA --
GO:0038191 NOT neuropilin binding IBA --
GO:0045499 chemorepellent activity IBA --
genes like me logo Genes that share ontologies with SEMA4F: view
genes like me logo Genes that share phenotypes with SEMA4F: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SEMA4F

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SEMA4F Gene

Localization for SEMA4F Gene

Subcellular locations from UniProtKB/Swiss-Prot for SEMA4F Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

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 SEMA4F gene
Compartment Confidence
plasma membrane 5
extracellular 4
endoplasmic reticulum 4
mitochondrion 1
cytosol 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Centrosome (2)
  • Nucleus (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SEMA4F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IBA --
GO:0005783 endoplasmic reticulum IDA --
GO:0005886 plasma membrane TAS 10051670
GO:0005887 integral component of plasma membrane TAS 10051670
GO:0016020 membrane IEA,TAS 10051670
genes like me logo Genes that share ontologies with SEMA4F: view

Pathways & Interactions for SEMA4F Gene

SuperPathways for SEMA4F Gene

SuperPathway Contained pathways
1 Axon guidance
genes like me logo Genes that share pathways with SEMA4F: view

Pathways by source for SEMA4F Gene

1 KEGG pathway for SEMA4F Gene

Gene Ontology (GO) - Biological Process for SEMA4F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001755 neural crest cell migration IBA --
GO:0007267 cell-cell signaling TAS 10051670
GO:0007275 multicellular organism development IEA --
GO:0007399 nervous system development TAS 10051670
GO:0007411 axon guidance TAS,IEA 10051670
genes like me logo Genes that share ontologies with SEMA4F: view

No data available for SIGNOR curated interactions for SEMA4F Gene

Drugs & Compounds for SEMA4F Gene

No Compound Related Data Available

Transcripts for SEMA4F Gene

Unigene Clusters for SEMA4F Gene

Sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4F:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SEMA4F Gene

No ASD Table

Relevant External Links for SEMA4F Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SEMA4F Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SEMA4F Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SEMA4F Gene

This gene is overexpressed in Plasma (58.8) and Peripheral blood mononuclear cells (10.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SEMA4F Gene

Protein tissue co-expression partners for SEMA4F Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SEMA4F Gene:


SOURCE GeneReport for Unigene cluster for SEMA4F Gene:


Evidence on tissue expression from TISSUES for SEMA4F Gene

  • Nervous system(4.9)
  • Pancreas(3)
genes like me logo Genes that share expression patterns with SEMA4F: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SEMA4F Gene

Orthologs for SEMA4F Gene

This gene was present in the common ancestor of chordates.

Orthologs for SEMA4F Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SEMA4F 34 33
  • 99.18 (n)
(Canis familiaris)
Mammalia SEMA4F 34 33
  • 91.26 (n)
(Bos Taurus)
Mammalia SEMA4F 34 33
  • 89.61 (n)
(Rattus norvegicus)
Mammalia Sema4f 33
  • 87.92 (n)
(Mus musculus)
Mammalia Sema4f 16 34 33
  • 87.79 (n)
(Monodelphis domestica)
Mammalia SEMA4F 34
  • 68 (a)
(Anolis carolinensis)
Reptilia SEMA4F 34
  • 50 (a)
(Danio rerio)
Actinopterygii sema4f 34 33
  • 48.63 (n)
Species where no ortholog for SEMA4F 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)
  • platypus (Ornithorhynchus anatinus)
  • 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 SEMA4F Gene

Gene Tree for SEMA4F (if available)
Gene Tree for SEMA4F (if available)
Evolutionary constrained regions (ECRs) for SEMA4F: view image

Paralogs for SEMA4F Gene

(15) SIMAP similar genes for SEMA4F Gene using alignment to 7 proteins:

  • B7Z931_HUMAN
  • C9K0A1_HUMAN
  • F8WD61_HUMAN
genes like me logo Genes that share paralogs with SEMA4F: view

Variants for SEMA4F Gene

Sequence variations from dbSNP and Humsavar for SEMA4F Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000050839 -- 74,667,040(+) T/C intron_variant
rs1000086577 -- 74,654,579(+) A/G intron_variant
rs1000113419 -- 74,674,034(+) A/G intron_variant
rs1000119499 -- 74,669,221(+) T/A intron_variant
rs1000255931 -- 74,668,892(+) A/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SEMA4F Gene

Variant ID Type Subtype PubMed ID
esv3591284 CNV gain 21293372
esv3591285 CNV gain 21293372
nsv1001495 CNV gain 25217958
nsv1003960 CNV gain 25217958
nsv582216 CNV gain 21841781
nsv819293 CNV loss 19587683
nsv829464 CNV loss 20364138

Variation tolerance for SEMA4F Gene

Residual Variation Intolerance Score: 16.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.28; 40.89% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SEMA4F Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SEMA4F Gene

Disorders for SEMA4F Gene

MalaCards: The human disease database

(1) MalaCards diseases for SEMA4F Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for SEMA4F

genes like me logo Genes that share disorders with SEMA4F: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SEMA4F Gene

Publications for SEMA4F Gene

  1. Fine mapping of the chromosome 2p12-16 dyslexia susceptibility locus: quantitative association analysis and positional candidate genes SEMA4F and OTX1. (PMID: 11901358) Francks C … Monaco AP (Psychiatric genetics 2002) 3 22 44 58
  2. Cloning, expression, and genetic mapping of Sema W, a member of the semaphorin family. (PMID: 10051670) Encinas JA … Kimura T (Proceedings of the National Academy of Sciences of the United States of America 1999) 2 3 4 58
  3. NF1 loss disrupts Schwann cell-axonal interactions: a novel role for semaphorin 4F. (PMID: 19056885) Parrinello S … Lloyd AC (Genes & development 2008) 3 22 58
  4. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier LW … Wilson RK (Nature 2005) 3 4 58
  5. Signal sequence and keyword trap in silico for selection of full-length human cDNAs encoding secretion or membrane proteins from oligo-capped cDNA libraries. (PMID: 16303743) Otsuki T … Isogai T (DNA research : an international journal for rapid publication of reports on genes and genomes 2005) 3 4 58

Products for SEMA4F Gene

Sources for SEMA4F Gene

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