Seroatlas · Human Serome Atlas

SEMA3E

Semaphorin-3E

Also known as: coll-5, KIAA0331, M-SemaK, SEM3E_HUMAN, SEMAH

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

Protein identityUniProt · HPA

UniProt accession
O15041
Gene
SEMA3E
Ensembl
ENSG00000170381
Chromosome
7
Canonical length
775 aa
Protein class
Human disease related genes, Predicted secreted proteins
Subcellular location
Nucleoplasm,Vesicles
Secretome location
Secreted in other tissues

OverviewNCBI Gene

Semaphorins are a large family of conserved secreted and membrane associated proteins which possess a semaphorin (Sema) domain and a PSI domain (found in plexins, semaphorins and integrins) in the N-terminal extracellular portion. Based on sequence and structural similarities, semaphorins are put into eight classes: invertebrates contain classes 1 and 2, viruses have class V, and vertebrates contain classes 3-7. Semaphorins serve as axon guidance ligands via multimeric receptor complexes, some (if not all) containing plexin proteins. This gene encodes a class 4 semaphorin. This gene encodes a class 3 semaphorin. Multiple transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, May 2010]

Canonical amino-acid sequenceUniProt

775 residues, UniProt reviewed canonical sequence.

>O15041|SEMA3E
     1  MASAGHIITL LLWGYLLELW TGGHTADTTH PRLRLSHKEL LNLNRTSIFH SPFGFLDLHT
    61  MLLDEYQERL FVGGRDLVYS LSLERISDGY KEIHWPSTAL KMEECIMKGK DAGECANYVR
   121  VLHHYNRTHL LTCGTGAFDP VCAFIRVGYH LEDPLFHLES PRSERGRGRC PFDPSSSFIS
   181  TLIGSELFAG LYSDYWSRDA AIFRSMGRLA HIRTEHDDER LLKEPKFVGS YMIPDNEDRD
   241  DNKVYFFFTE KALEAENNAH AIYTRVGRLC VNDVGGQRIL VNKWSTFLKA RLVCSVPGMN
   301  GIDTYFDELE DVFLLPTRDH KNPVIFGLFN TTSNIFRGHA ICVYHMSSIR AAFNGPYAHK
   361  EGPEYHWSVY EGKVPYPRPG SCASKVNGGR YGTTKDYPDD AIRFARSHPL MYQAIKPAHK
   421  KPILVKTDGK YNLKQIAVDR VEAEDGQYDV LFIGTDNGIV LKVITIYNQE MESMEEVILE
   481  ELQIFKDPVP IISMEISSKR QQLYIGSASA VAQVRFHHCD MYGSACADCC LARDPYCAWD
   541  GISCSRYYPT GTHAKRRFRR QDVRHGNAAQ QCFGQQFVGD ALDKTEEHLA YGIENNSTLL
   601  ECTPRSLQAK VIWFVQKGRE TRKEEVKTDD RVVKMDLGLL FLRLHKSDAG TYFCQTVEHS
   661  FVHTVRKITL EVVEEEKVED MFNKDDEEDR HHRMPCPAQS SISQGAKPWY KEFLQLIGYS
   721  NFQRVEEYCE KVWCTDRKRK KLKMSPSKWK YANPQEKKLR SKPEHYRLPR HTLDS

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SEMA3E 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
Secreted
Secreted
Yes
Transmembrane segments
0
Mean surface accessibility (rSASA)
0.31
Highest tissue expression
4.2 nTPM

Expression across tissuesHPA

Tissue

  • cerebral cortex: 4.2 nTPM
  • prostate: 3.8 nTPM
  • retina: 3.6 nTPM
  • urinary bladder: 3.3 nTPM
  • seminal vesicle: 3 nTPM
  • breast: 2.6 nTPM

Single-cell type

  • oligodendrocyte progenitor cells: 245 nCPM
  • retinal bipolar cells: 207 nCPM
  • alveolar cells type 1: 165 nCPM
  • medullary thymic epithelial cells: 149 nCPM
  • cholangiocytes: 111 nCPM
  • pancreatic islet cells: 105 nCPM

Immune cell

  • basophil: 0.1 nTPM
  • classical monocyte: 0 nTPM
  • eosinophil: 0 nTPM
  • gdT-cell: 0 nTPM
  • intermediate monocyte: 0 nTPM
  • MAIT T-cell: 0 nTPM

Brain region

  • hypothalamus: 14 nTPM
  • cerebral cortex: 13 nTPM
  • midbrain: 12 nTPM
  • thalamus: 11 nTPM
  • white matter: 9.9 nTPM
  • spinal cord: 9.4 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about SEMA3E.

Disease | GeneticClinVar

2 pathogenic / likely-pathogenic of 907 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)
0.68
gnomAD pLI
0
gnomAD missense Z
0.46
DepMap mean gene effect
-0.01
DepMap dependency class
none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% 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 SEMA3E 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 SEMA3E as an antibody target. Whether an autoantibody or antibody against SEMA3E could matter depends on whether native SEMA3E is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

SEMA3E is annotated as secreted, so native SEMA3E circulates and is directly accessible to antibodies. Secreted and cell-surface proteins are the autoantibody targets most likely to act like drugs, blocking or depleting the native protein.

Annotation status

The present source text does not explicitly label SEMA3E as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/SEMA3E. 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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