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SEMA6C semaphorin 6C [ Homo sapiens (human) ]

Gene ID: 10500, updated on 18-Aug-2020

Summary

Official Symbol
SEMA6Cprovided by HGNC
Official Full Name
semaphorin 6Cprovided by HGNC
Primary source
HGNC:HGNC:10740
See related
Ensembl:ENSG00000143434 MIM:609294
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SEMAY; m-SemaY; m-SemaY2
Summary
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]
Expression
Broad expression in testis (RPKM 9.5), heart (RPKM 5.4) and 20 other tissues See more
Orthologs

Genomic context

See SEMA6C in Genome Data Viewer
Location:
1q21.3
Exon count:
22
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (151131707..151148408, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (151104161..151119146, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene MLLT11 transcription factor 7 cofactor Neighboring gene GA binding protein transcription factor subunit beta 2 Neighboring gene ribosomal protein S29 pseudogene 29 Neighboring gene TNFAIP8L2-SCNM1 readthrough Neighboring gene LysM domain containing 1 Neighboring gene TNF alpha induced protein 8 like 2 Neighboring gene sodium channel modifier 1 Neighboring gene tropomodulin 4

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chemorepellent activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
semaphorin receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of axon extension involved in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
neural crest cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
semaphorin-plexin signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
semaphorin-6C
Names
sema Y
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C
semaphorin-Y

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_029237.1 RefSeqGene

    Range
    5034..19980
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001178061.3NP_001171532.1  semaphorin-6C isoform 1 precursor

    See identical proteins and their annotated locations for NP_001171532.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AB022434, AF339154, AL592424, DA787858
    Consensus CDS
    CCDS53364.1
    UniProtKB/Swiss-Prot
    Q9H3T2
    Related
    ENSP00000357909.3, ENST00000368913.7
    Conserved Domains (2) summary
    pfam01437
    Location:518570
    PSI; Plexin repeat
    cl15693
    Location:53517
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
  2. NM_001178062.3NP_001171533.1  semaphorin-6C isoform 3 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an exon in the coding region compared to variant 1. The resulting protein (isoform 3) is shorter but has the same N- and C-termini compared to isoform 1.
    Source sequence(s)
    AB022434, AF339152, AF339153, AL592424, DA787858
    Consensus CDS
    CCDS53363.1
    UniProtKB/Swiss-Prot
    Q9H3T2
    Related
    ENSP00000357908.3, ENST00000368912.7
    Conserved Domains (2) summary
    pfam01437
    Location:478530
    PSI; Plexin repeat
    cl15693
    Location:53477
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
  3. NM_030913.6NP_112175.2  semaphorin-6C isoform 2 precursor

    See identical proteins and their annotated locations for NP_112175.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an exon in the 3' coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.
    Source sequence(s)
    AB022434, AF339152, AL592424, DA787858
    Consensus CDS
    CCDS984.1
    UniProtKB/Swiss-Prot
    Q9H3T2
    Related
    ENSP00000357910.3, ENST00000368914.7
    Conserved Domains (2) summary
    pfam01437
    Location:518570
    PSI; Plexin repeat
    cl15693
    Location:53517
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    151131707..151148408 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017000081.1XP_016855570.1  semaphorin-6C isoform X3

    UniProtKB/Swiss-Prot
    Q9H3T2
    Conserved Domains (2) summary
    pfam01437
    Location:478530
    PSI; Plexin repeat
    cl15693
    Location:53477
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
  2. XM_017000079.1XP_016855568.1  semaphorin-6C isoform X2

    UniProtKB/Swiss-Prot
    Q9H3T2
    Conserved Domains (2) summary
    pfam01437
    Location:518570
    PSI; Plexin repeat
    cl15693
    Location:53517
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
  3. XM_017000077.1XP_016855566.1  semaphorin-6C isoform X1

    UniProtKB/Swiss-Prot
    Q9H3T2
    Conserved Domains (2) summary
    pfam01437
    Location:518570
    PSI; Plexin repeat
    cl15693
    Location:53517
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
  4. XM_005244835.3XP_005244892.1  semaphorin-6C isoform X1

    See identical proteins and their annotated locations for XP_005244892.1

    UniProtKB/Swiss-Prot
    Q9H3T2
    Conserved Domains (2) summary
    pfam01437
    Location:518570
    PSI; Plexin repeat
    cl15693
    Location:53517
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
  5. XM_017000075.2XP_016855564.1  semaphorin-6C isoform X1

    UniProtKB/Swiss-Prot
    Q9H3T2
    Conserved Domains (2) summary
    pfam01437
    Location:518570
    PSI; Plexin repeat
    cl15693
    Location:53517
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
  6. XM_017000076.2XP_016855565.1  semaphorin-6C isoform X1

    UniProtKB/Swiss-Prot
    Q9H3T2
    Conserved Domains (2) summary
    pfam01437
    Location:518570
    PSI; Plexin repeat
    cl15693
    Location:53517
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
  7. XM_017000082.1XP_016855571.1  semaphorin-6C isoform X4

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