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Aliases for SEMA6C Gene

Aliases for SEMA6C Gene

  • Semaphorin 6C 2 3
  • Sema Domain, Transmembrane Domain (TM), And Cytoplasmic Domain, (Semaphorin) 6C 2 3 5
  • Semaphorin-Y 3 4
  • Sema Y 3 4
  • SEMAY 3 4
  • M-Sema Y2 2
  • M-SemaY2 3
  • KIAA1869 4
  • M-SemaY 3

External Ids for SEMA6C Gene

Previous GeneCards Identifiers for SEMA6C Gene

  • GC01M148946
  • GC01M146851
  • GC01M147879
  • GC01M148320
  • GC01M147918
  • GC01M149370
  • GC01M122481

Summaries for SEMA6C Gene

Entrez Gene Summary for SEMA6C Gene

  • This gene encodes a member of the semaphorin family. Semaphorins represent important molecular signals controlling multiple aspects of the cellular response that follows CNS injury, and thus may play an important role in neural regeneration. [provided by RefSeq, May 2010]

GeneCards Summary for SEMA6C Gene

SEMA6C (Semaphorin 6C) is a Protein Coding gene. Among its related pathways are Axon guidance. GO annotations related to this gene include receptor activity and semaphorin receptor binding. An important paralog of this gene is SEMA6D.

UniProtKB/Swiss-Prot for SEMA6C Gene

  • Shows growth cone collapsing activity on dorsal root ganglion (DRG) neurons in vitro. May be a stop signal for the DRG neurons in their target areas, and possibly also for other neurons. May also be involved in the maintenance and remodeling of neuronal connections.

Gene Wiki entry for SEMA6C Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SEMA6C Gene

Genomics for SEMA6C Gene

Regulatory Elements for SEMA6C Gene

Promoters for SEMA6C Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SEMA6C on UCSC Golden Path with GeneCards custom track

Genomic Location for SEMA6C Gene

Chromosome:
1
Start:
151,131,685 bp from pter
End:
151,146,664 bp from pter
Size:
14,980 bases
Orientation:
Minus strand

Genomic View for SEMA6C Gene

Genes around SEMA6C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SEMA6C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SEMA6C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SEMA6C Gene

Proteins for SEMA6C Gene

  • Protein details for SEMA6C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H3T2-SEM6C_HUMAN
    Recommended name:
    Semaphorin-6C
    Protein Accession:
    Q9H3T2
    Secondary Accessions:
    • D3DV15
    • Q5JR71
    • Q5JR72
    • Q5JR73
    • Q8WXT8
    • Q8WXT9
    • Q8WXU0
    • Q96JF8

    Protein attributes for SEMA6C Gene

    Size:
    930 amino acids
    Molecular mass:
    99686 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB47498.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for SEMA6C Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SEMA6C Gene

Proteomics data for SEMA6C Gene at MOPED

Post-translational modifications for SEMA6C Gene

  • Glycosylation at Asn 70, Asn 286, and Asn 437
  • Modification sites at PhosphoSitePlus

Other Protein References for SEMA6C Gene

Antibody Products

  • R&D Systems Antibodies for SEMA6C (Semaphorin 6C)

No data available for DME Specific Peptides for SEMA6C Gene

Domains & Families for SEMA6C Gene

Gene Families for SEMA6C Gene

Suggested Antigen Peptide Sequences for SEMA6C Gene

Graphical View of Domain Structure for InterPro Entry

Q9H3T2

UniProtKB/Swiss-Prot:

SEM6C_HUMAN :
  • Contains 1 PSI domain.
  • Belongs to the semaphorin family.
Domain:
  • Contains 1 PSI domain.
  • Contains 1 Sema domain.
Family:
  • Belongs to the semaphorin family.
genes like me logo Genes that share domains with SEMA6C: view

Function for SEMA6C Gene

Molecular function for SEMA6C Gene

UniProtKB/Swiss-Prot Function:
Shows growth cone collapsing activity on dorsal root ganglion (DRG) neurons in vitro. May be a stop signal for the DRG neurons in their target areas, and possibly also for other neurons. May also be involved in the maintenance and remodeling of neuronal connections.
genes like me logo Genes that share phenotypes with SEMA6C: view

Animal Models for SEMA6C Gene

MGI Knock Outs for SEMA6C:

Animal Model Products

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for SEMA6C Gene

Localization for SEMA6C Gene

Subcellular locations from UniProtKB/Swiss-Prot for SEMA6C Gene

Cell membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SEMA6C Gene COMPARTMENTS Subcellular localization image for SEMA6C gene
Compartment Confidence
plasma membrane 5
extracellular 3
cytosol 1
lysosome 1
mitochondrion 1
vacuole 1

No data available for Gene Ontology (GO) - Cellular Components for SEMA6C Gene

Pathways & Interactions for SEMA6C Gene

SuperPathways for SEMA6C Gene

Superpath Contained pathways
1 Axon guidance
genes like me logo Genes that share pathways with SEMA6C: view

Pathways by source for SEMA6C Gene

1 KEGG pathway for SEMA6C Gene

Interacting Proteins for SEMA6C Gene

Gene Ontology (GO) - Biological Process for SEMA6C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007411 axon guidance IEA --
GO:0030335 positive regulation of cell migration IBA --
GO:0048843 negative regulation of axon extension involved in axon guidance IBA --
genes like me logo Genes that share ontologies with SEMA6C: view

No data available for SIGNOR curated interactions for SEMA6C Gene

Drugs & Compounds for SEMA6C Gene

No Compound Related Data Available

Transcripts for SEMA6C Gene

Unigene Clusters for SEMA6C Gene

Sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SEMA6C Gene

ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8a · 8b ^ 9 ^ 10a · 10b · 10c ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14 ^
SP1: - - - - - - -
SP2:
SP3: - - - - - - -
SP4: -
SP5:
SP6:
SP7: - - -
SP8: - - - - -
SP9:
SP10:
SP11:
SP12:

ExUns: 15a · 15b ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21a · 21b
SP1:
SP2: -
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:

Relevant External Links for SEMA6C Gene

GeneLoc Exon Structure for
SEMA6C
ECgene alternative splicing isoforms for
SEMA6C

Expression for SEMA6C Gene

mRNA expression in normal human tissues for SEMA6C Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SEMA6C Gene

This gene is overexpressed in Muscle - Skeletal (x10.4).

Protein differential expression in normal tissues from HIPED for SEMA6C Gene

This gene is overexpressed in Esophagus (52.3) and Neutrophil (15.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SEMA6C Gene



SOURCE GeneReport for Unigene cluster for SEMA6C Gene Hs.516316

mRNA Expression by UniProt/SwissProt for SEMA6C Gene

Q9H3T2-SEM6C_HUMAN
Tissue specificity: In adult tissues, expressed only in skeletal muscle.
genes like me logo Genes that share expression patterns with SEMA6C: view

Protein tissue co-expression partners for SEMA6C Gene

Primer Products

In Situ Assay Products

Orthologs for SEMA6C Gene

This gene was present in the common ancestor of animals.

Orthologs for SEMA6C Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SEMA6C 36
  • 99 (a)
OneToOne
SEMA6C 35
  • 99.69 (n)
  • 99.48 (a)
cow
(Bos Taurus)
Mammalia SEMA6C 36
  • 90 (a)
OneToOne
SEMA6C 35
  • 89.66 (n)
  • 90.11 (a)
dog
(Canis familiaris)
Mammalia SEMA6C 35
  • 87.93 (n)
  • 87.3 (a)
SEMA6C 36
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sema6c 16
Sema6c 36
  • 88 (a)
OneToOne
Sema6c 35
  • 86.34 (n)
  • 87.7 (a)
oppossum
(Monodelphis domestica)
Mammalia SEMA6C 36
  • 76 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 31 (a)
ManyToMany
-- 36
  • 24 (a)
ManyToMany
rat
(Rattus norvegicus)
Mammalia Sema6c 35
  • 87.06 (n)
  • 88.31 (a)
chicken
(Gallus gallus)
Aves LOC100859892 35
  • 59.94 (n)
  • 56.95 (a)
SEMA6C 36
  • 52 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SEMA6C 36
  • 66 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii sema6d 36
  • 43 (a)
OneToMany
sema6e 36
  • 41 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG4383 37
  • 34 (a)
Sema-1a 37
  • 35 (a)
Sema-1b 37
  • 36 (a)
Sema-2a 37
  • 33 (a)
Sema-2a 36
  • 28 (a)
ManyToMany
Sema-2b 36
  • 24 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea mab-20 37
  • 28 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 31 (a)
OneToMany
Species with no ortholog for SEMA6C:
  • 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)
  • 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)
  • 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 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)

Evolution for SEMA6C Gene

ENSEMBL:
Gene Tree for SEMA6C (if available)
TreeFam:
Gene Tree for SEMA6C (if available)

Paralogs for SEMA6C Gene

Paralogs for SEMA6C Gene

(9) SIMAP similar genes for SEMA6C Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with SEMA6C: view

Variants for SEMA6C Gene

Sequence variations from dbSNP and Humsavar for SEMA6C Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs4971007 - 151,135,661(+) TGGGG(G/T)CAGCA reference, missense
rs3811402 -- 151,147,269(+) GAAAG(C/G)AAGGT upstream-variant-2KB
rs3811403 -- 151,148,186(+) AAAGA(C/T)ACCTC upstream-variant-2KB
rs4387181 -- 151,140,859(+) CAGGC(A/G)TGGTG intron-variant
rs4512652 -- 151,143,214(+) CAGTT(C/G)GGGGA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SEMA6C Gene

Variant ID Type Subtype PubMed ID
nsv522840 CNV Gain 19592680
dgv385n71 CNV Loss 21882294
dgv2n68 CNV Loss 17160897

Variation tolerance for SEMA6C Gene

Residual Variation Intolerance Score: 65.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.77; 73.51% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SEMA6C Gene

HapMap Linkage Disequilibrium report
SEMA6C

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SEMA6C Gene

Disorders for SEMA6C Gene

Relevant External Links for SEMA6C

Genetic Association Database (GAD)
SEMA6C
Human Genome Epidemiology (HuGE) Navigator
SEMA6C
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SEMA6C

No disorders were found for SEMA6C Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SEMA6C Gene

Publications for SEMA6C Gene

  1. Identification, characterization, and functional study of the two novel human members of the semaphorin gene family. (PMID: 12110693) Qu X. … He F. (J. Biol. Chem. 2002) 2 3 4 67
  2. Polymorphisms in genes involved in neurodevelopment may be associated with altered brain morphology in schizophrenia: preliminary evidence. (PMID: 19054571) GregA^rio S.P. … Dias-Neto E. (Psychiatry Res 2009) 3
  3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3
  4. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3
  5. Redifferentiation of dedifferentiated chondrocytes and chondrogenesis of human bone marrow stromal cells via chondrosphere formation with expression profiling by large-scale cDNA analysis. (PMID: 12878157) Imabayashi H. … Umezawa A. (Exp. Cell Res. 2003) 3

Products for SEMA6C Gene

Sources for SEMA6C Gene

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