Seroatlas · Human Serome Atlas

LGALS9C

Galectin-9C

Also known as: LEG9C_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q6DKI2
Gene: LGALS9C
Ensembl: ENSG00000171916
Chromosome: 17
Canonical length: 356 aa
Protein class: Predicted intracellular proteins
Subcellular location: Cytosol

OverviewNCBI Gene

This gene was initially thought to represent a pseudogene of galectin 9; however, this transcript has good exon-intron structure and encodes a predicted protein of the same size as and highly similar to galectin 9. This gene is one of two similar loci on chromosome 17p similar to galectin 9 and now thought to be protein-encoding. This gene is the more telomeric gene. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

356 residues, UniProt reviewed canonical sequence.

>Q6DKI2|LGALS9C
     1  MAFSGCQAPY LSPAVPFSGT IQGGLQDGFQ ITVNGAVLSC SGTRFAVDFQ TGFSGNDIAF
    61  HFNPRFEDGG YVVCNTRQKG TWGPEERKMH MPFQKGMPFD LCFLVQSSDF KVMVNGSLFV
   121  QYFHRVPFHR VDTISVNGSV QLSYISFQNP RAVPVQPAFS TVPFSQPVCF PPRPRGRRQK
   181  PPSVRPANPA PITQTVIHTV QSASGQMFSQ TPAIPPMMYP HPAYPMPFIT TIPGGLYPSK
   241  SIILSGTVLP SAQRFHINLC SGSHIAFHMN PRFDENAVVR NTQINNSWGS EERSLPRKMP
   301  FVRGQSFSVW ILCEAHCLKV AVDGQHVFEY YHRLRNLPTI NKLEVGGDIQ LTHVQT

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against LGALS9C 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: Intracellular
Secreted: No
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.34
Highest tissue expression: 11 nTPM

Expression across tissuesHPA

Tissue

stomach: 11 nTPM
esophagus: 10 nTPM
colon: 9.2 nTPM
rectum: 4.5 nTPM
small intestine: 4.4 nTPM
gallbladder: 2.9 nTPM

Single-cell type

nk-cells: 1 nCPM
ependymal cells: 0.8 nCPM
goblet cells: 0.7 nCPM
foveolar cells: 0.6 nCPM
neuroendocrine cells: 0.5 nCPM
colonocytes: 0.4 nCPM

Immune cell

NK-cell: 5.5 nTPM
neutrophil: 1.9 nTPM
non-classical monocyte: 0.6 nTPM
total PBMC: 0.6 nTPM
intermediate monocyte: 0.5 nTPM
gdT-cell: 0.4 nTPM

Brain region

amygdala: 0 nTPM
basal ganglia: 0 nTPM
cerebellum: 0 nTPM
cerebral cortex: 0 nTPM
choroid plexus: 0 nTPM
hippocampal formation: 0 nTPM

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): 1.51
gnomAD pLI: 0
gnomAD missense Z: 0.9
DepMap mean gene effect: -0.1
DepMap dependency class: selective

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

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads LGALS9C as an antibody target. Whether an autoantibody or antibody against LGALS9C could matter depends on whether native LGALS9C is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

LGALS9C is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label LGALS9C as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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