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    hdlbpb high density lipoprotein binding protein b [ Danio rerio (zebrafish) ]

    Gene ID: 555414, updated on 11-Apr-2024

    Summary

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    Official Symbol
    hdlbpbprovided by ZNC
    Official Full Name
    high density lipoprotein binding protein bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-6822
    See related
    Ensembl:ENSDARG00000061864 AllianceGenome:ZFIN:ZDB-GENE-030131-6822
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fa07b03; sb:eu532; wu:fa07b03; si:dkey-38p12.2
    Summary
    Predicted to enable mRNA binding activity. Predicted to be part of polysome. Predicted to be active in cytoplasm and nucleus. Is expressed in brain; mesoderm; pectoral fin; and somite. Orthologous to human HDLBP (high density lipoprotein binding protein). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    See hdlbpb in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 12 NC_007123.7 (22404094..22445061)
    105 previous assembly GRCz10 (GCF_000002035.5) 12 NC_007123.6 (22282875..22323842)

    Chromosome 12 - NC_007123.7Genomic Context describing neighboring genes Neighboring gene N-ethylmaleimide-sensitive factor b Neighboring gene Rho guanine nucleotide exchange factor 15b Neighboring gene neuralized E3 ubiquitin protein ligase 4 Neighboring gene sex hormone-binding globulin

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. An integrated transcriptomic and proteomic approach characterizing estrogenic and metabolic effects of 17 alpha-ethinylestradiol in zebrafish (Danio rerio). De Wit M, et al. Gen Comp Endocrinol, 2010 Jun 1. PMID 20227414
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    high density lipoprotein binding protein b; vigilin

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007123.7 Reference GRCz11 Primary Assembly

      Range
      22404094..22445061
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021480308.1 → XP_021335983.1  vigilin

      UniProtKB/TrEMBL
      A0A286YBA6, A0A8M9Q8Z8, E7FCA5
      Related
      ENSDARP00000127252.1, ENSDART00000153055.2
      Conserved Domains (1) summary
      cd02394
      Location:580 → 641
      vigilin_like_KH; K homology RNA-binding domain_vigilin_like. The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has ...

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394839.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      346193..387160
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_677913.5 → XP_683005.3  vigilin

      UniProtKB/TrEMBL
      A0A286YBA6, A0A8M9Q8Z8, E7FCA5
      Conserved Domains (1) summary
      cd02394
      Location:580 → 641
      vigilin_like_KH; K homology RNA-binding domain_vigilin_like. The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has ...
    Nucleotide Protein Strain
    Heading Accession and Version

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