Sema6c
Gene Detail

Symbol Name ID

Sema6c sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C MGI:1338032

Synonyms

mKIAA1869, Semay, Sema Y

Feature Type

protein coding gene

Genetic Map

Chromosome 3

40.74 cM, cytoband F2
Detailed Genetic Map ± 1 cM


Mapping data(2)

Sequence Map

Chr3:95160457-95174024 bp, + strand From VEGA annotation of GRCm38   13568 bp   ±  kb flank VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer

Mouse Genome Browser

Mammalian homology

human; rat; cattle; chimpanzee; dog, domestic    (Mammalian Orthology)
Comparative Map (Mouse/Human Sema6c ± 2 cM)

Gene Tree: Sema6c

Human ortholog

SEMA6C sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C NCBI Gene ID 10500
Human Synonyms: m-SemaY, m-SemaY2, SEMAY
Human Chr1:151104161-151119140 bp, - strand Reference GRCh37.p2 Primary Assembly

Alleles and phenotypes

All alleles(15) : Targeted(4) Gene trapped(11)
 

Mice homozygous for a targeted mutation display a decrease in pain threshold.

 

Gene Ontology (GO) classifications

All GO classifications: (11 annotations)

Process	axon guidance, cell differentiation, ...
Component	integral to membrane, membrane, ...
Function	receptor activity, semaphorin receptor binding

External Resources: FuncBase

Expression

Literature Summary: (9 records)
Data Summary: Results (153)    Tissues (99)    Images (70)
Theiler Stages: 23, 28

Assay Type	Results
RNA in situ	24
In situ reporter (knock in)	91
RT-PCR	38

cDNA source data(45)
External Resources: Allen Institute   GEO   ArrayExpress

Molecular reagents

All nucleic(46) cDNA(45) Primer pair(1)
Microarray probesets(5)

Other database links

VEGA Gene Model	OTTMUSG00000022286 (Evidence)
Ensembl Gene Model	ENSMUSG00000038777 (Evidence)
Entrez Gene	20360 (Evidence)
UniGene	23662
DFCI	TC1580981, TC1592851, TC1603902, TC1606402, TC1619618
DoTS	DT.101169591, DT.101196690, DT.101379752, DT.484428, DT.94153434, DT.97398319, DT.99736517
NIA Mouse Gene Index	U003559
Consensus CDS Project	CCDS17604.1
International Mouse Knockout Project Status	Sema6c

Sequences

Length	Strain/Species
genomic	OTTMUSG00000022286	VEGA Gene Model | MGI Sequence Detail	13568	C57BL/6J
transcript	OTTMUST00000053085	VEGA | MGI Sequence Detail	4029	Not Applicable
polypeptide	OTTMUSP00000025223	VEGA | MGI Sequence Detail	963	Not Applicable

All sequences(85) RefSeq(7) UniProt(8)

Polymorphisms

SNPs(3 from dbSNP Build 128)

Protein-related information

Resource	ID	Description
InterPro	IPR002165	Plexin
InterPro	IPR016201	Plexin-like fold
InterPro	IPR003659	Plexin/semaphorin/integrin
InterPro	IPR015514	Semaphorin 6C
InterPro	IPR001627	Semaphorin/CD100 antigen
InterPro	IPR015943	WD40/YVTN repeat-like-containing domain
Protein Ontology	PR:000014631	semaphorin-6C

References

(Earliest) J:53334 Kikuchi K, et al., Cloning and characterization of a novel class VI semaphorin, semaphorin Y. Mol Cell Neurosci. 1999 Jan;13(1):9-23
(Latest) J:188362 Kuwajima T, et al., Optic chiasm presentation of Semaphorin6D in the context of Plexin-A1 and Nr-CAM promotes retinal axon midline crossing. Neuron. 2012 May 24;74(4):676-90
All references(46)