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    LGALS9B galectin 9B [ Homo sapiens (human) ]

    Gene ID: 284194, updated on 2-Nov-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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    See LGALS9B in Genome Data Viewer
    Location:
    17p11.2
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (20449395..20467539, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (20398046..20647761, complement)
    RS_2024_09 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 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_2024_08

    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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