Gene Gene information from NCBI Gene database.
Entrez ID 64218
Gene name Semaphorin 4A
Gene symbol SEMA4A
Synonyms (NCBI Gene)
CORD10RP35SEMABSEMB
Chromosome 1
Chromosome location 1q22
Summary This gene encodes a member of the semaphorin family of soluble and transmembrane proteins. Semaphorins are involved in numerous functions, including axon guidance, morphogenesis, carcinogenesis, and immunomodulation. The encoded protein is a single-pass t
SNPs SNP information provided by dbSNP.
8
SNP ID Visualize variation Clinical significance Consequence
rs41265017 G>A Pathogenic, benign, likely-benign Coding sequence variant, missense variant
rs145993678 A>C Conflicting-interpretations-of-pathogenicity, uncertain-significance Coding sequence variant, synonymous variant
rs149652495 T>C Likely-pathogenic Missense variant, 5 prime UTR variant, coding sequence variant
rs149711133 G>A,T Uncertain-significance, conflicting-interpretations-of-pathogenicity, likely-benign Intron variant, synonymous variant, 5 prime UTR variant, coding sequence variant
rs267607033 G>C Pathogenic Missense variant, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
14
miRTarBase ID miRNA Experiments Reference
MIRT755953 hsa-miR-218-5p Luciferase reporter assayqRT-PCRRNA-seq 38785931
MIRT1335038 hsa-miR-122 CLIP-seq
MIRT1335039 hsa-miR-3180-5p CLIP-seq
MIRT1335040 hsa-miR-3622b-5p CLIP-seq
MIRT1335041 hsa-miR-3659 CLIP-seq
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
30
GO ID Ontology Definition Evidence Reference
GO:0001525 Process Angiogenesis IEA
GO:0001755 Process Neural crest cell migration IBA
GO:0002250 Process Adaptive immune response IEA
GO:0002292 Process T cell differentiation involved in immune response IEA
GO:0002376 Process Immune system process IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
607292 10729 ENSG00000196189
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q9H3S1
Protein name Semaphorin-4A (Semaphorin-B) (Sema B)
Protein function Cell surface receptor for PLXNB1, PLXNB2, PLXNB3 and PLXND1 that plays an important role in cell-cell signaling (By similarity). Regulates glutamatergic and GABAergic synapse development (By similarity). Promotes the development of inhibitory sy
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF01403 Sema 66 476 Sema domain Family
PF01437 PSI 496 548 Plexin repeat Family
Sequence
Sequence length 761
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Axon guidance   Other semaphorin interactions
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
24
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Cone-rod dystrophy 10 Pathogenic rs267607034 RCV000003527
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Helicoid peripapillary chorioretinal degeneration Pathogenic rs1249149946 RCV001199781
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Retinal dystrophy Likely pathogenic rs2528301563 RCV003889623
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Retinitis pigmentosa Pathogenic rs1653548589 RCV001199780
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
BREAST CANCER GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BREAST CARCINOMA GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cervical cancer Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Colorectal cancer Conflicting classifications of pathogenicity; Uncertain significance ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Acne Acne BEFREE 11033841
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma Adenocarcinoma BEFREE 1657384
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of pancreas Pancreatic adenocarcinoma HPO_DG
★☆☆☆☆
Found in Text Mining only
Age related macular degeneration Age-related macular degeneration HPO_DG
★☆☆☆☆
Found in Text Mining only
Agnosia Agnosia HPO_DG
★☆☆☆☆
Found in Text Mining only
Amaurosis congenita of Leber type 1 Leber congenital amaurosis Pubtator 16199541 Associate
★☆☆☆☆
Found in Text Mining only
Anxiety Anxiety Disorder HPO_DG
★☆☆☆☆
Found in Text Mining only
Arthritis Arthritis BEFREE 26542940
★☆☆☆☆
Found in Text Mining only
Arthritis Arthritis Pubtator 26542940 Associate
★☆☆☆☆
Found in Text Mining only
Arthritis Rheumatoid Rheumatoid arthritis Pubtator 26303122 Stimulate
★☆☆☆☆
Found in Text Mining only