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LGALS9B galectin 9B [ Homo sapiens (human) ]

Gene ID: 284194, updated on 5-Mar-2024

Summary

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Official Symbol
LGALS9Bprovided by HGNC
Official Full Name
galectin 9Bprovided by HGNC
Primary source
HGNC:HGNC:24842
See related
Ensembl:ENSG00000170298 AllianceGenome:HGNC:24842
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
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 centromeric gene. [provided by RefSeq, Jul 2008]
Expression
Biased expression in stomach (RPKM 25.2), gall bladder (RPKM 10.0) and 4 other tissues See more
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Genomic context

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Location:
17p11.2
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (20449395..20467539, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (20398046..20647761, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (20352708..20370852, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene ubiquitin specific peptidase 32 pseudogene 3 Neighboring gene family with sequence similarity 106 member B Neighboring gene proximal SMS-REP block A recombination region Neighboring gene nitric oxide synthase 2 pseudogene 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:20353101-20353600 Neighboring gene transportin 1 pseudogene 3 Neighboring gene tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon pseudogene 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Structure and evolution of the Smith-Magenis syndrome repeat gene clusters, SMS-REPs. Park SS, et al. Genome Res, 2002 May. PMID 11997339, Free PMC Article
  2. An interactome perturbation framework prioritizes damaging missense mutations for developmental disorders. Chen S, et al. Nat Genet, 2018 Jul. PMID 29892012, Free PMC Article
  3. Transcriptome analysis of human gastric cancer. Oh JH, et al. Mamm Genome, 2005 Dec. PMID 16341674
  4. Extensive disruption of protein interactions by genetic variants across the allele frequency spectrum in human populations. Fragoza R, et al. Nat Commun, 2019 Sep 12. PMID 31515488, Free PMC Article
  5. A proteome-scale map of the human interactome network. Rolland T, et al. Cell, 2014 Nov 20. PMID 25416956, Free PMC Article

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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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)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ58146, FLJ75081

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-9B
Names
gal-9B
galectin-9 like
galectin-9 pseudogene
galectin-9-like protein A
lectin, galactoside-binding, soluble, 9B

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)

  1. NM_001042685.3 → NP_001036150.1  galectin-9B isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC015818
    Consensus CDS
    CCDS42283.1
    UniProtKB/TrEMBL
    B3KWW5
    Related
    ENSP00000315564.5, ENST00000324290.5
    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 ...

  2. NM_001367292.2 → NP_001354221.1  galectin-9B isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC015818
    Consensus CDS
    CCDS92280.1
    UniProtKB/Swiss-Prot
    A6NLF8, A8K2J8, Q3B8N2
    UniProtKB/TrEMBL
    B3KWW5
    Related
    ENSP00000388841.3, ENST00000423676.8
    Conserved Domains (3) 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 ...
    cl26386
    Location:150 → 227
    DNA_pol3_gamma3; DNA polymerase III subunits gamma and tau domain III

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

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    20449395..20467539 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    20398046..20647761 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NG_002718.1: Suppressed sequence

    Description
    NG_002718.1: This RefSeq was permanently suppressed because it is now thought that this gene does encode a protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3B8N2.3 GenPept UniProtKB/Swiss-Prot:Q3B8N2

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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