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    Hdlbp high density lipoprotein (HDL) binding protein [ Mus musculus (house mouse) ]

    Gene ID: 110611, updated on 9-Dec-2024

    Summary

    Official Symbol
    Hdlbpprovided by MGI
    Official Full Name
    high density lipoprotein (HDL) binding proteinprovided by MGI
    Primary source
    MGI:MGI:99256
    See related
    Ensembl:ENSMUSG00000034088 AllianceGenome:MGI:99256
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    D1Ertd101e; 1110005P14Rik
    Summary
    Predicted to enable mRNA binding activity. Predicted to be involved in cholesterol metabolic process and lipid transport. Predicted to be located in cytoplasm and nucleus. Predicted to be part of high-density lipoprotein particle. Is expressed in brain; genitourinary system; and retina. Orthologous to human HDLBP (high density lipoprotein binding protein). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in placenta adult (RPKM 70.8), limb E14.5 (RPKM 50.6) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Hdlbp in Genome Data Viewer
    Location:
    1 D; 1 47.24 cM
    Exon count:
    32
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (93333662..93406639, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (93405940..93478917, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene protein phosphatase 1, regulatory subunit 7 Neighboring gene predicted gene, 26446 Neighboring gene anoctamin 7 Neighboring gene predicted gene, 17415 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:95362466-95362649 Neighboring gene STARR-positive B cell enhancer ABC_E1556 Neighboring gene STARR-positive B cell enhancer ABC_E4336 Neighboring gene septin 2 Neighboring gene STARR-positive B cell enhancer ABC_E4337 Neighboring gene STARR-positive B cell enhancer ABC_E1223 Neighboring gene STARR-seq mESC enhancer starr_01729 Neighboring gene FERM, RhoGEF and pleckstrin domain protein 2 Neighboring gene predicted gene, 41920 Neighboring gene STARR-seq mESC enhancer starr_01730 Neighboring gene elongation factor RNA polymerase II-like 3 pseudogene

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (5) 

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding  
    enables mRNA binding  
    Process Evidence Code Pubs
    involved_in cholesterol metabolic process  
    involved_in lipid transport  
    Component Evidence Code Pubs
    located_in cytoplasm  
    part_of high-density lipoprotein particle  
    located_in nucleus  

    General protein information

    Preferred Names
    vigilin
    Names
    HDL-binding protein
    high density lipoprotein-binding protein

    NCBI Reference Sequences (RefSeq)

    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_001301364.2NP_001288293.1  vigilin isoform 1

      See identical proteins and their annotated locations for NP_001288293.1

      Status: VALIDATED

      Source sequence(s)
      AC108412
      Consensus CDS
      CCDS15189.1
      UniProtKB/Swiss-Prot
      Q8VDJ3
      UniProtKB/TrEMBL
      Q3U4Z7, Q3V1M8
      Related
      ENSMUSP00000043047.8, ENSMUST00000042498.14
      Conserved Domains (1) summary
      cl00098
      Location:875970
      KH-I; K homology (KH) RNA-binding domain, type I
    2. NM_001357556.2NP_001344485.1  vigilin isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC108412
      Consensus CDS
      CCDS15189.1
      UniProtKB/Swiss-Prot
      Q8VDJ3
      UniProtKB/TrEMBL
      Q3U4Z7, Q3V1M8
      Conserved Domains (1) summary
      cl00098
      Location:875970
      KH-I; K homology (KH) RNA-binding domain, type I
    3. NM_001432849.1NP_001419778.1  vigilin isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC108412
      UniProtKB/Swiss-Prot
      Q8VDJ3
      UniProtKB/TrEMBL
      Q3U4Z7, Q3V1M8
    4. NM_001432850.1NP_001419779.1  vigilin isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC108412
      UniProtKB/Swiss-Prot
      Q8VDJ3
      UniProtKB/TrEMBL
      Q3U4Z7, Q3V1M8
    5. NM_001432851.1NP_001419780.1  vigilin isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC108412
      UniProtKB/Swiss-Prot
      Q8VDJ3
      UniProtKB/TrEMBL
      Q3U4Z7, Q3V1M8
    6. NM_001432852.1NP_001419781.1  vigilin isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC108412
      UniProtKB/TrEMBL
      Q3V1M8
    7. NM_001432853.1NP_001419782.1  vigilin isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC108412
      UniProtKB/TrEMBL
      Q3V1M8
    8. NM_001432854.1NP_001419783.1  vigilin isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC108412
      UniProtKB/TrEMBL
      Q3V1M8
    9. NM_001432855.1NP_001419784.1  vigilin isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC108412
      UniProtKB/TrEMBL
      Q3V1M8
    10. NM_001432856.1NP_001419785.1  vigilin isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC108412
      UniProtKB/TrEMBL
      Q3V1M8
    11. NM_133808.6NP_598569.1  vigilin isoform 1

      See identical proteins and their annotated locations for NP_598569.1

      Status: VALIDATED

      Source sequence(s)
      AC108412
      Consensus CDS
      CCDS15189.1
      UniProtKB/Swiss-Prot
      Q8VDJ3
      UniProtKB/TrEMBL
      Q3U4Z7, Q3V1M8
      Related
      ENSMUSP00000127903.2, ENSMUST00000170883.8
      Conserved Domains (1) summary
      cl00098
      Location:875970
      KH-I; K homology (KH) RNA-binding domain, type I

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      93333662..93406639 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030242016.2XP_030097876.1  vigilin isoform X1

      UniProtKB/Swiss-Prot
      Q8VDJ3
      UniProtKB/TrEMBL
      Q3U4Z7, Q3V1M8
      Conserved Domains (1) summary
      cl00098
      Location:875970
      KH-I; K homology (KH) RNA-binding domain, type I
    2. XM_006529077.5XP_006529140.1  vigilin isoform X1

      Related
      ENSMUSP00000139671.2, ENSMUST00000186164.7
      Conserved Domains (1) summary
      cl00098
      Location:875970
      KH-I; K homology (KH) RNA-binding domain, type I
    3. XM_006529075.4XP_006529138.1  vigilin isoform X1

      Conserved Domains (1) summary
      cl00098
      Location:875970
      KH-I; K homology (KH) RNA-binding domain, type I
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