Seroatlas · Human Serome Atlas

SEMA6A

Semaphorin-6A

Also known as: HT018, KIAA1368, SEM6A_HUMAN, SEMA, SEMA6A1, SEMAQ

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
Q9H2E6
Gene
SEMA6A
Ensembl
ENSG00000092421
Chromosome
5
Canonical length
1030 aa
Protein class
Plasma proteins, Predicted intracellular proteins, Predicted membrane proteins
Subcellular location
Nucleoplasm,Nuclear bodies,Intermediate filaments
Quaternary structure
Homodimer

OverviewNCBI Gene

Predicted to enable identical protein binding activity; signaling receptor binding activity; and transmembrane signaling receptor activity. Involved in cellular response to vascular endothelial growth factor stimulus; negative regulation of cell adhesion involved in sprouting angiogenesis; and negative regulation of signal transduction. Predicted to be located in axon and membrane. Predicted to be active in plasma membrane. [provided by Alliance of Genome Resources, Jul 2025]

Canonical amino-acid sequenceUniProt

1030 residues, UniProt reviewed canonical sequence.

>Q9H2E6|SEMA6A
     1  MRSEALLLYF TLLHFAGAGF PEDSEPISIS HGNYTKQYPV FVGHKPGRNT TQRHRLDIQM
    61  IMIMNGTLYI AARDHIYTVD IDTSHTEEIY CSKKLTWKSR QADVDTCRMK GKHKDECHNF
   121  IKVLLKKNDD ALFVCGTNAF NPSCRNYKMD TLEPFGDEFS GMARCPYDAK HANVALFADG
   181  KLYSATVTDF LAIDAVIYRS LGESPTLRTV KHDSKWLKEP YFVQAVDYGD YIYFFFREIA
   241  VEYNTMGKVV FPRVAQVCKN DMGGSQRVLE KQWTSFLKAR LNCSVPGDSH FYFNILQAVT
   301  DVIRINGRDV VLATFSTPYN SIPGSAVCAY DMLDIASVFT GRFKEQKSPD STWTPVPDER
   361  VPKPRPGCCA GSSSLERYAT SNEFPDDTLN FIKTHPLMDE AVPSIFNRPW FLRTMVRYRL
   421  TKIAVDTAAG PYQNHTVVFL GSEKGIILKF LARIGNSGFL NDSLFLEEMS VYNSEKCSYD
   481  GVEDKRIMGM QLDRASSSLY VAFSTCVIKV PLGRCERHGK CKKTCIASRD PYCGWIKEGG
   541  ACSHLSPNSR LTFEQDIERG NTDGLGDCHN SFVALNGHSS SLLPSTTTSD STAQEGYESR
   601  GGMLDWKHLL DSPDSTDPLG AVSSHNHQDK KGVIRESYLK GHDQLVPVTL LAIAVILAFV
   661  MGAVFSGITV YCVCDHRRKD VAVVQRKEKE LTHSRRGSMS SVTKLSGLFG DTQSKDPKPE
   721  AILTPLMHNG KLATPGNTAK MLIKADQHHL DLTALPTPES TPTLQQKRKP SRGSREWERN
   781  QNLINACTKD MPPMGSPVIP TDLPLRASPS HIPSVVVLPI TQQGYQHEYV DQPKMSEVAQ
   841  MALEDQAATL EYKTIKEHLS SKSPNHGVNL VENLDSLPPK VPQREASLGP PGASLSQTGL
   901  SKRLEMHHSS SYGVDYKRSY PTNSLTRSHQ ATTLKRNNTN SSNSSHLSRN QSFGRGDNPP
   961  PAPQRVDSIQ VHSSQPSGQA VTVSRQPSLN AYNSLTRSGL KRTPSLKPDV PPKPSFAPLS
  1021  TSMKPNDACT

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SEMA6A can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Cell surface
Secreted
No
Transmembrane segments
1
Mean surface accessibility (rSASA)
0.45
Highest tissue expression
60 nTPM

Expression across tissuesHPA

Tissue

  • adrenal gland: 60 nTPM
  • spinal cord: 54 nTPM
  • placenta: 30 nTPM
  • midbrain: 26 nTPM
  • small intestine: 24 nTPM
  • cerebral cortex: 24 nTPM

Single-cell type

  • syncytiotrophoblasts: 835 nCPM
  • adrenal cortex cells: 801 nCPM
  • cardiomyocytes: 525 nCPM
  • lymphatic endothelial cells: 409 nCPM
  • oligodendrocytes: 387 nCPM
  • epicardial cells: 337 nCPM

Immune cell

  • memory B-cell: 0.2 nTPM
  • memory CD4 T-cell: 0.2 nTPM
  • gdT-cell: 0.1 nTPM
  • naive B-cell: 0.1 nTPM
  • plasmacytoid DC: 0.1 nTPM
  • basophil: 0 nTPM

Brain region

  • white matter: 167 nTPM
  • medulla oblongata: 126 nTPM
  • pons: 121 nTPM
  • basal ganglia: 115 nTPM
  • thalamus: 108 nTPM
  • midbrain: 102 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about SEMA6A.

Disease | GeneticClinVar

2 pathogenic / likely-pathogenic of 209 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
0.22
gnomAD pLI
1
gnomAD missense Z
0.75
DepMap mean gene effect
0.05
DepMap dependency class
none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 5% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of SEMA6A in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads SEMA6A as an antibody target. Whether an autoantibody or antibody against SEMA6A could matter depends on whether native SEMA6A is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

SEMA6A is annotated at the cell surface, where native SEMA6A is exposed to circulating antibodies and is a prime autoantibody target that could block, deplete, or overstimulate it.

Annotation status

The present source text does not explicitly label SEMA6A as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/SEMA6A. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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