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    OBP2B odorant binding protein 2B [ Homo sapiens (human) ]

    Gene ID: 29989, updated on 9-Dec-2024

    Summary

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    Official Symbol
    OBP2Bprovided by HGNC
    Official Full Name
    odorant binding protein 2Bprovided by HGNC
    Primary source
    HGNC:HGNC:23381
    See related
    Ensembl:ENSG00000171102 MIM:604606; AllianceGenome:HGNC:23381
    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
    LCN14; OBPIIb
    Summary
    Predicted to enable small molecule binding activity. Predicted to be involved in chemosensory behavior. Predicted to be located in extracellular region. Predicted to be active in extracellular space. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward testis (RPKM 3.3) See more
    Orthologs
    mouse all
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    Genomic context

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    See OBP2B in Genome Data Viewer
    Location:
    9q34.2
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (133205279..133223255, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (145418863..145436839, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (136080666..136084637, complement)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr9:135976589-135977788 Neighboring gene ral guanine nucleotide dissociation stimulator Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29228 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:135995531-135996227 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20442 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20443 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20444 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20445 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr9:136002206-136003405 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:136008097-136008641 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29229 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29230 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29231 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29233 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29232 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:136019197-136019756 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20446 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20447 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:136024237-136024884 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:136038755-136039477 Neighboring gene globoside alpha-1,3-N-acetylgalactosaminyltransferase 1 (FORS blood group) Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:136062831-136063698 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:136075403-136076124 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:136081856-136082043 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:136102720-136103675 Neighboring gene uncharacterized LOC124902294 Neighboring gene lipocalin 1 pseudogene 1

    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. A cell-specific regulatory region of the human ABO blood group gene regulates the neighborhood gene encoding odorant binding protein 2B. Sano R, et al. Sci Rep, 2021 Apr 1. PMID 33795748, Free PMC Article
    2. Evidence of an odorant-binding protein in the human olfactory mucus: location, structural characterization, and odorant-binding properties. Briand L, et al. Biochemistry, 2002 Jun 11. PMID 12044155
    3. A novel human odorant-binding protein gene family resulting from genomic duplicons at 9q34: differential expression in the oral and genital spheres. Lacazette E, et al. Hum Mol Genet, 2000 Jan 22. PMID 10607840
    4. Molecular cloning of odorant-binding protein: member of a ligand carrier family. Pevsner J, et al. Science, 1988 Jul 15. PMID 3388043
    5. Linkage analysis identifies a locus for plasma von Willebrand factor undetected by genome-wide association. Desch KC, et al. Proc Natl Acad Sci U S A, 2013 Jan 8. PMID 23267103, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. A cell-specific regulatory region of the human ABO blood group gene regulates the neighborhood gene encoding odorant binding protein 2B.
      Title: A cell-specific regulatory region of the human ABO blood group gene regulates the neighborhood gene encoding odorant binding protein 2B.
    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

    EBI GWAS Catalog

    Description
    Linkage analysis identifies a locus for plasma von Willebrand factor undetected by genome-wide association.
    EBI GWAS Catalog

    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

    Homology

    Clone Names

    • MGC119022

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables odorant binding NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables small molecule binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in chemosensory behavior TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in sensory perception of smell NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    odorant-binding protein 2b
    Names
    odorant-binding protein IIb

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_001288987.2 → NP_001275916.1  odorant-binding protein 2b precursor

      See identical proteins and their annotated locations for NP_001275916.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1 and alpha encode the same protein.
      Source sequence(s)
      AI251747, BC098340, HY046406
      Consensus CDS
      CCDS6961.1
      UniProtKB/Swiss-Prot
      Q5VSP6, Q9NPH6, Q9NY51, Q9NY52
      UniProtKB/TrEMBL
      Q2PAD7
      Related
      ENSP00000484615.1, ENST00000618116.4
      Conserved Domains (1) summary
      pfam00061
      Location:26 → 164
      Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

    2. NM_014581.4 → NP_055396.1  odorant-binding protein 2b precursor

      See identical proteins and their annotated locations for NP_055396.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (alpha, PMID:10607840) differs in the 3' UTR, compared to variant 1. Variants 1 and alpha encode the same protein.
      Source sequence(s)
      AI251747, AY358981, HY046406
      Consensus CDS
      CCDS6961.1
      UniProtKB/Swiss-Prot
      Q5VSP6, Q9NPH6, Q9NY51, Q9NY52
      UniProtKB/TrEMBL
      Q2PAD7
      Related
      ENSP00000361104.3, ENST00000372034.8
      Conserved Domains (1) summary
      pfam00061
      Location:26 → 164
      Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

    RNA

    1. NR_110242.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (beta, PMID:10607840) contains an alternate exon and differs in the 3' UTR, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AI251747, AJ251027, HY046406
      Related
      ENST00000473737.5

    2. NR_110243.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (gamma, PMID:10607840) lacks an alternate exon and differs in the 3' UTR, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AI251747, AJ251028, BX101545, HY046406
      Related
      ENST00000461961.2

    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_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      133205279..133223255 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047423295.1 → XP_047279251.1  odorant-binding protein 2b isoform X1

    2. XM_017014654.2 → XP_016870143.1  odorant-binding protein 2b isoform X1

      Conserved Domains (1) summary
      pfam00061
      Location:78 → 216
      Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

    3. XM_006717086.4 → XP_006717149.1  odorant-binding protein 2b isoform X2

      See identical proteins and their annotated locations for XP_006717149.1

      UniProtKB/TrEMBL
      Q2PAD7
      Conserved Domains (1) summary
      pfam00061
      Location:1 → 131
      Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_009646201.1 Reference GRCh38.p14 PATCHES

      Range
      31225..49201 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054331580.1 → XP_054187555.1  odorant-binding protein 2b isoform X1

    2. XM_054331581.1 → XP_054187556.1  odorant-binding protein 2b isoform X2

      UniProtKB/TrEMBL
      Q2PAD7

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      145418863..145436839 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054362851.1 → XP_054218826.1  odorant-binding protein 2b isoform X1

    2. XM_054362850.1 → XP_054218825.1  odorant-binding protein 2b isoform X1

    3. XM_054362852.1 → XP_054218827.1  odorant-binding protein 2b isoform X2

      UniProtKB/TrEMBL
      Q2PAD7
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9NPH6.1 GenPept UniProtKB/Swiss-Prot:Q9NPH6

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