LGALS9C galectin 9C [Homo sapiens (human)] - Gene

Summary

Official Symbol: LGALS9Cprovided by HGNC
Official Full Name: galectin 9Cprovided by HGNC
Primary source: HGNC:HGNC:33874
See related: Ensembl:ENSG00000171916 AllianceGenome:HGNC:33874
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: Gal-9B; LGALS9B
Summary: 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]
Expression: Biased expression in stomach (RPKM 22.9), gall bladder (RPKM 8.6) and 4 other tissues See more
Orthologs: all
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Genomic context

Location:: 17p11.2

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	17	NC_000017.11 (18476789..18494945)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	17	NC_060941.1 (18423619..18441775)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	17	NC_000017.10 (18380103..18398259)

Chromosome 17 - NC_000017.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Specific recognition of Leishmania major poly-beta-galactosyl epitopes by this compound implicates it in interactions between L. major and host cells.
Title: Specific recognition of Leishmania major poly-beta-galactosyl epitopes by galectin-9: possible implication of galectin-9 in interaction between L. major and host cells.
Functional analysis of the carbohydrate recognition domains and a linker peptide as to eosinophil chemoattractant activity
Title: Functional analysis of the carbohydrate recognition domains and a linker peptide of galectin-9 as to eosinophil chemoattractant activity.

Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

ksks301 (e-PCR)
- UniSTS:514344

G13298 (e-PCR)
- UniSTS:34798

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables carbohydrate binding	IBA Inferred from Biological aspect of Ancestor more info
enables galactoside binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in negative regulation of CD4-positive, alpha-beta T cell proliferation	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of type II interferon production	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IDA Inferred from Direct Assay more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: galectin-9C

Names: Galectin-9-like protein A; Galectin-9B; gal-9C; galectin 9 like; galectin-9-like protein B; lectin, galactoside-binding, soluble, 9 (galectin 9) pseudogene; lectin, galactoside-binding, soluble, 9C

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

NM_001040078.3 → NP_001035167.2 galectin-9C

See identical proteins and their annotated locations for NP_001035167.2

Status: VALIDATED

Source sequence(s)

BC073889, BM769737, DA426549

Consensus CDS

CCDS32587.1

UniProtKB/Swiss-Prot

B0AZM7, Q6DKI2

UniProtKB/TrEMBL

B3KWW5

Related

ENSP00000329932.6, ENST00000328114.11

Conserved Domains (2) summary

smart00908
Location:233 → 355

Gal-bind_lectin; Galactoside-binding lectin

cd00070
Location:16 → 146

GLECT; Galectin/galactose-binding lectin. This domain exclusively binds beta-galactosides, such as lactose, and does not require metal ions for activity. GLECT domains occur as homodimers or tandemly repeated domains. They are developmentally regulated and may ...

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000017.11 Reference GRCh38.p14 Primary Assembly

Range

18476789..18494945

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011523995.2 → XP_011522297.1 galectin-9C isoform X5

UniProtKB/TrEMBL

J3QR96

Conserved Domains (2) summary

cd00070
Location:16 → 146

GLECT; Galectin/galactose-binding lectin. This domain exclusively binds beta-galactosides, such as lactose, and does not require metal ions for activity. GLECT domains occur as homodimers or tandemly repeated domains. They are developmentally regulated and may ...

cl00071
Location:227 → 254

GLECT; Galectin/galactose-binding lectin. This domain exclusively binds beta-galactosides, such as lactose, and does not require metal ions for activity. GLECT domains occur as homodimers or tandemly repeated domains. They are developmentally regulated and may ...
XM_005256769.2 → XP_005256826.1 galectin-9C isoform X1

UniProtKB/TrEMBL

B3KWW5

Conserved Domains (2) summary

smart00908
Location:232 → 354

Gal-bind_lectin; Galactoside-binding lectin

cd00070
Location:16 → 146

GLECT; Galectin/galactose-binding lectin. This domain exclusively binds beta-galactosides, such as lactose, and does not require metal ions for activity. GLECT domains occur as homodimers or tandemly repeated domains. They are developmentally regulated and may ...
XM_011523993.2 → XP_011522295.1 galectin-9C isoform X2

UniProtKB/TrEMBL

B3KWW5

Conserved Domains (2) summary

smart00908
Location:201 → 323

Gal-bind_lectin; Galactoside-binding lectin

cd00070
Location:16 → 146

GLECT; Galectin/galactose-binding lectin. This domain exclusively binds beta-galactosides, such as lactose, and does not require metal ions for activity. GLECT domains occur as homodimers or tandemly repeated domains. They are developmentally regulated and may ...
XM_005256770.2 → XP_005256827.1 galectin-9C isoform X3

UniProtKB/TrEMBL

B3KWW5, J3KSY2

Related

ENSP00000462708.1, ENST00000583322.5

Conserved Domains (2) summary

smart00908
Location:200 → 322

Gal-bind_lectin; Galactoside-binding lectin

cd00070
Location:16 → 146

GLECT; Galectin/galactose-binding lectin. This domain exclusively binds beta-galactosides, such as lactose, and does not require metal ions for activity. GLECT domains occur as homodimers or tandemly repeated domains. They are developmentally regulated and may ...
XM_024450891.2 → XP_024306659.1 galectin-9C isoform X8

UniProtKB/TrEMBL

J3QR96

Related

ENSP00000464108.1, ENST00000581545.5

Conserved Domains (2) summary

cd00070
Location:16 → 146

GLECT; Galectin/galactose-binding lectin. This domain exclusively binds beta-galactosides, such as lactose, and does not require metal ions for activity. GLECT domains occur as homodimers or tandemly repeated domains. They are developmentally regulated and may ...

cl00071
Location:194 → 221

GLECT; Galectin/galactose-binding lectin. This domain exclusively binds beta-galactosides, such as lactose, and does not require metal ions for activity. GLECT domains occur as homodimers or tandemly repeated domains. They are developmentally regulated and may ...
XM_011523994.2 → XP_011522296.1 galectin-9C isoform X4

UniProtKB/TrEMBL

B3KWW5

Conserved Domains (2) summary

smart00908
Location:189 → 311

Gal-bind_lectin; Galactoside-binding lectin

cd00070
Location:16 → 146

GLECT; Galectin/galactose-binding lectin. This domain exclusively binds beta-galactosides, such as lactose, and does not require metal ions for activity. GLECT domains occur as homodimers or tandemly repeated domains. They are developmentally regulated and may ...
XM_011523996.1 → XP_011522298.1 galectin-9C isoform X6

UniProtKB/TrEMBL

B4DKP4

Conserved Domains (1) summary

smart00908
Location:145 → 267

Gal-bind_lectin; Galactoside-binding lectin
XM_011523997.1 → XP_011522299.1 galectin-9C isoform X7

UniProtKB/TrEMBL

B4DKP4

Conserved Domains (2) summary

smart00908
Location:130 → 252

Gal-bind_lectin; Galactoside-binding lectin

cl00071
Location:8 → 43

GLECT; Galectin/galactose-binding lectin. This domain exclusively binds beta-galactosides, such as lactose, and does not require metal ions for activity. GLECT domains occur as homodimers or tandemly repeated domains. They are developmentally regulated and may ...