Semaphorins are a large family of conserved secreted and membrane associated proteins which possess a semaphorin (Sema) domain and a PSI domain (found in plexins, semaphorins and integrins) in the N-terminal extracellular portion. Based on sequence and structural similarities, semaphorins are put into eight classes: invertebrates contain classes 1 and 2, viruses have class V, a... See more...

Aliases for SEMA4G Gene

Aliases for SEMA4G Gene

  • Semaphorin 4G 2 3 5
  • Sema Domain, Immunoglobulin Domain (Ig), Transmembrane Domain (TM) And Short Cytoplasmic Domain, (Semaphorin) 4G 2 3
  • Semaphorin-4G 3 4
  • KIAA1619 2 4
  • FLJ20590 2
  • SEMA4G 5

External Ids for SEMA4G Gene

Previous GeneCards Identifiers for SEMA4G Gene

  • GC10P101625
  • GC10P101966
  • GC10P102860
  • GC10P102396
  • GC10P102719
  • GC10P096361
  • GC10P102729

Summaries for SEMA4G Gene

Entrez Gene Summary for SEMA4G Gene

  • Semaphorins are a large family of conserved secreted and membrane associated proteins which possess a semaphorin (Sema) domain and a PSI domain (found in plexins, semaphorins and integrins) in the N-terminal extracellular portion. Based on sequence and structural similarities, semaphorins are put into eight classes: invertebrates contain classes 1 and 2, viruses have class V, and vertebrates contain classes 3-7. Semaphorins serve as axon guidance ligands via multimeric receptor complexes, some (if not all) containing plexin proteins. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2011]

GeneCards Summary for SEMA4G Gene

SEMA4G (Semaphorin 4G) is a Protein Coding gene. Diseases associated with SEMA4G include Diffuse Glomerulonephritis and Alzheimer Disease. Among its related pathways are Nanog in Mammalian ESC Pluripotency and Apoptotic Pathways in Synovial Fibroblasts. An important paralog of this gene is SEMA4C.

UniProtKB/Swiss-Prot Summary for SEMA4G Gene

  • Cell surface receptor for PLXNB2. May play a role in axon guidance (By similarity).

Gene Wiki entry for SEMA4G Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SEMA4G Gene

Genomics for SEMA4G Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SEMA4G 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
GH10J100968 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 250.7 +1.5 1450 4.6 MYC SSRP1 CEBPA ATF3 ZIC2 YY1 MXD4 FOXA1 KLF11 ZNF639 SEMA4G lnc-PDZD7-7 MRPL43 PDZD7 MIR608 TWNK
GH10J100984 Promoter 0.4 EPDnew 250.4 +14.9 14856 0.1 ZBTB17 ENSG00000236662 piR-41756 SEMA4G MRPL43 TWNK lnc-PDZD7-6 MIR608
GH10J100993 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 12.4 +29.0 29031 9 ZNF207 ZNF654 MYC IKZF1 ZNF600 ZNF580 ZNF592 ZNF223 ZNF10 ZSCAN16 LZTS2 MRPL43 SEMA4G MIR608 ENSG00000272572 KCNIP2 MN309199 lnc-PDZD7-1 TWNK SFXN3
GH10J100909 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 10.9 -57.0 -56980 6.6 SP1 ZNF207 NCOR1 MYC IKZF1 SIX5 ZNF580 ZMYM3 KLF9 POLR2A ENSG00000272572 SLF2 MRPL43 TWNK SEMA4G CHUK MIR608
GH10J101030 Promoter/Enhancer 1.9 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 10.9 +63.7 63744 6.4 SP1 ZNF600 JUND KLF9 ZNF223 ZNF10 ZIC2 ZBTB10 MXD4 CTCF PDZD7 MRPL43 TWNK KAZALD1 TLX1 TLX1NB SEMA4G ENSG00000236662 MIR608 PHBP9
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SEMA4G on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SEMA4G

Top Transcription factor binding sites by QIAGEN in the SEMA4G gene promoter:
  • CUTL1
  • E47
  • FOXD3
  • FOXO3
  • FOXO3a
  • FOXO3b
  • HNF-4alpha1
  • Lmo2
  • p53
  • RFX1

Genomic Locations for SEMA4G Gene

Latest Assembly
chr10:100,969,503-100,985,871
(GRCh38/hg38)
Size:
16,369 bases
Orientation:
Plus strand

Previous Assembly
chr10:102,732,286-102,745,373
(GRCh37/hg19 by Entrez Gene)
Size:
13,088 bases
Orientation:
Plus strand

chr10:102,729,275-102,745,628
(GRCh37/hg19 by Ensembl)
Size:
16,354 bases
Orientation:
Plus strand

Genomic View for SEMA4G Gene

Genes around SEMA4G on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SEMA4G Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SEMA4G Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SEMA4G Gene

Proteins for SEMA4G Gene

  • Protein details for SEMA4G Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NTN9-SEM4G_HUMAN
    Recommended name:
    Semaphorin-4G
    Protein Accession:
    Q9NTN9
    Secondary Accessions:
    • A1A5C6
    • A6NJY8
    • Q58EY1
    • Q9HCF3

    Protein attributes for SEMA4G Gene

    Size:
    838 amino acids
    Molecular mass:
    91497 Da
    Quaternary structure:
    • Interacts with PLXNB2.
    SequenceCaution:
    • Sequence=BAB13445.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for SEMA4G Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SEMA4G Gene

Post-translational modifications for SEMA4G Gene

  • Glycosylation at Asn55, Asn111, Asn126, Asn388, Asn542, and Asn598
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • SEM4G_HUMAN (1735)

No data available for DME Specific Peptides for SEMA4G Gene

Domains & Families for SEMA4G Gene

Gene Families for SEMA4G Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for SEMA4G Gene

Suggested Antigen Peptide Sequences for SEMA4G Gene

GenScript: Design optimal peptide antigens:
  • SEMA4G protein (Q9NWU8_HUMAN)
  • Semaphorin-4G (SEM4G_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9NTN9

UniProtKB/Swiss-Prot:

SEM4G_HUMAN :
  • Belongs to the semaphorin family.
Family:
  • Belongs to the semaphorin family.
genes like me logo Genes that share domains with SEMA4G: view

Function for SEMA4G Gene

Molecular function for SEMA4G Gene

UniProtKB/Swiss-Prot Function:
Cell surface receptor for PLXNB2. May play a role in axon guidance (By similarity).

Phenotypes From GWAS Catalog for SEMA4G Gene

Gene Ontology (GO) - Molecular Function for SEMA4G Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0030215 semaphorin receptor binding IBA 21873635
GO:0045499 chemorepellent activity IBA 21873635
genes like me logo Genes that share ontologies with SEMA4G: view
genes like me logo Genes that share phenotypes with SEMA4G: view

Animal Models for research

  • Taconic Biosciences Mouse Models for SEMA4G

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SEMA4G

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SEMA4G Gene

Localization for SEMA4G Gene

Subcellular locations from UniProtKB/Swiss-Prot for SEMA4G Gene

Cell membrane. Single-pass type I 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 SEMA4G gene
Compartment Confidence
plasma membrane 5
extracellular 4
cytoskeleton 2
mitochondrion 2
nucleus 2
cytosol 2
endoplasmic reticulum 1
endosome 1
lysosome 1
golgi apparatus 1
peroxisome 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Lipid droplets (1)
  • Vesicles (1)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SEMA4G Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IBA 21873635
GO:0005886 plasma membrane IEA --
GO:0005887 integral component of plasma membrane IBA 21873635
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SEMA4G: view

Pathways & Interactions for SEMA4G Gene

PathCards logo

SuperPathways for SEMA4G Gene

SuperPathway Contained pathways
1 Apoptotic Pathways in Synovial Fibroblasts
.85
.85
.84
.84
.74
.72
.66
.65
.64
.62
.61
.60
.57
.57
2 GPCR Pathway
.73
.73
.62
.59
.58
.58
.55
3 ERK Signaling
.61
.61
.58
.51
.49
4 Nanog in Mammalian ESC Pluripotency
.61
.61
.59
.48
5 CREB Pathway
.68
.68
.63
.50
genes like me logo Genes that share pathways with SEMA4G: view

Pathways by source for SEMA4G Gene

1 KEGG pathway for SEMA4G Gene
54 Qiagen pathways for SEMA4G Gene
  • 14-3-3 Induced Intracellular Signaling
  • Actin-Based Motility by Rho Family GTPases
  • Activation of cAMP-Dependent PKA
  • Activation of PKA through GPCR
  • Activation of PKC through GPCR

Gene Ontology (GO) - Biological Process for SEMA4G Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001755 neural crest cell migration IBA 21873635
GO:0007275 multicellular organism development IEA --
GO:0007399 nervous system development IEA --
GO:0007411 axon guidance IBA 21873635
GO:0030154 cell differentiation IEA --
genes like me logo Genes that share ontologies with SEMA4G: view

No data available for SIGNOR curated interactions for SEMA4G Gene

Drugs & Compounds for SEMA4G Gene

No Compound Related Data Available

Transcripts for SEMA4G Gene

mRNA/cDNA for SEMA4G Gene

3 REFSEQ mRNAs :
10 NCBI additional mRNA sequence :
12 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SEMA4G

Alternative Splicing Database (ASD) splice patterns (SP) for SEMA4G Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7a · 7b
SP1: - - -
SP2: -
SP3:
SP4:

Relevant External Links for SEMA4G Gene

GeneLoc Exon Structure for
SEMA4G

Expression for SEMA4G Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SEMA4G Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SEMA4G Gene

This gene is overexpressed in Colon - Transverse (x7.0) and Liver (x5.7).

Protein differential expression in normal tissues from HIPED for SEMA4G Gene

This gene is overexpressed in Rectum (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SEMA4G Gene



Protein tissue co-expression partners for SEMA4G Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SEMA4G

SOURCE GeneReport for Unigene cluster for SEMA4G Gene:

Hs.591923

Evidence on tissue expression from TISSUES for SEMA4G Gene

  • Nervous system(4.6)
  • Heart(2.3)
  • Liver(2.3)
  • Skin(2.2)
  • Kidney(2.2)
  • Muscle(2.1)
  • Eye(2)
genes like me logo Genes that share expression patterns with SEMA4G: view

Primer products for research

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SEMA4G Gene

Orthologs for SEMA4G Gene

This gene was present in the common ancestor of chordates.

Orthologs for SEMA4G Gene

Organism Taxonomy Gene Similarity Type Details
Cow
(Bos Taurus)
Mammalia SEMA4G 29 30
  • 90 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia SEMA4G 29 30
  • 89.71 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Sema4g 29
  • 88.92 (n)
Mouse
(Mus musculus)
Mammalia Sema4g 29 16 30
  • 88.56 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia SEMA4G 30
  • 78 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia SEMA4G 30
  • 66 (a)
OneToOne
Chicken
(Gallus gallus)
Aves SEMA4G 30
  • 63 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia SEMA4G 30
  • 58 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia sema4g 29
  • 58.07 (n)
Zebrafish
(Danio rerio)
Actinopterygii sema4ga 29 30
  • 56.98 (n)
OneToMany
SEMA4G (2 of 2) 30
  • 48 (a)
OneToMany
Species where no ortholog for SEMA4G was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Chimpanzee (Pan troglodytes)
  • 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 Vase (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)
  • Worm (Caenorhabditis elegans)

Evolution for SEMA4G Gene

ENSEMBL:
Gene Tree for SEMA4G (if available)
TreeFam:
Gene Tree for SEMA4G (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SEMA4G: view image
Alliance of Genome Resources:
Additional Orthologs for SEMA4G

Paralogs for SEMA4G Gene

(15) SIMAP similar genes for SEMA4G Gene using alignment to 5 proteins:

  • SEM4G_HUMAN
  • E5RFG2_HUMAN
  • E5RGX4_HUMAN
  • H0YBN3_HUMAN
  • Q9NWU8_HUMAN
genes like me logo Genes that share paralogs with SEMA4G: view

Variants for SEMA4G Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SEMA4G Gene

SNP ID Clinical significance and condition Chr 10 pos Variation AA Info Type
rs113498503 Benign: not provided 100,980,855(+) A/G
NM_176792.3(MRPL43):c.529-1483T>C
MISSENSE_VARIANT,INTRON
rs140405167 Likely Benign: not provided 100,983,761(+) G/A
NM_176792.3(MRPL43):c.522C>T (p.Pro174=)
MISSENSE_VARIANT,NONSENSE,SYNONYMOUS_VARIANT,INTRON
rs141766082 Likely Benign: not provided 100,972,951(+) C/T
NM_017893.3(SEMA4G):c.39C>T (p.Leu13=)
SYNONYMOUS
rs146245319 Benign: not provided 100,983,388(+) C/T
NM_176792.3(MRPL43):c.528+367G>A
MISSENSE_VARIANT,INTRON
rs188155769 Benign: not provided 100,979,179(+) A/G
NM_176792.3(MRPL43):c.*74T>C
SYNONYMOUS_VARIANT,THREE_PRIME_UTR

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SEMA4G Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for SEMA4G Gene

Variant ID Type Subtype PubMed ID
esv3624366 CNV loss 21293372
nsv467443 CNV loss 19166990
nsv517698 CNV loss 19592680
nsv552051 CNV loss 21841781
nsv831965 CNV loss 17160897

Variation tolerance for SEMA4G Gene

Residual Variation Intolerance Score: 61% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.91; 48.89% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SEMA4G Gene

Human Gene Mutation Database (HGMD)
SEMA4G
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SEMA4G
Leiden Open Variation Database (LOVD)
SEMA4G

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SEMA4G Gene

Disorders for SEMA4G Gene

MalaCards: The human disease database

(3) MalaCards diseases for SEMA4G Gene - From: COP and GCD

Disorder Aliases PubMed IDs
diffuse glomerulonephritis
  • glomerulonephritis diffuse
alzheimer disease
  • ad
kallmann syndrome
  • familial hypogonadism with anosmia
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for SEMA4G

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with SEMA4G: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SEMA4G Gene

Publications for SEMA4G Gene

  1. Single nucleotide polymorphisms of microRNA machinery genes modify the risk of renal cell carcinoma. (PMID: 19047128) Horikawa Y … Wu X (Clinical cancer research : an official journal of the American Association for Cancer Research 2008) 3 40
  2. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PMID: 16385451) Grupe A … Goate A (American journal of human genetics 2006) 3 40
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  4. The DNA sequence and comparative analysis of human chromosome 10. (PMID: 15164054) Deloukas P … Rogers J (Nature 2004) 3 4
  5. Prediction of the coding sequences of unidentified human genes. XVIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10997877) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2000) 3 4

Products for SEMA4G Gene

Sources for SEMA4G Gene