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

Gene ID: 110611, updated on 11-Apr-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 act upstream of or within cholesterol metabolic process and lipid transport. Predicted to be located in cytosol. Predicted to be part of polysome. Predicted to be active in cytoplasm and nucleus. Is expressed in brain; female reproductive system; male reproductive system; ovary; and testis. Orthologous to human HDLBP (high density lipoprotein binding protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in placenta adult (RPKM 70.8), limb E14.5 (RPKM 50.6) and 28 other tissues See more
Orthologs
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Genomic context

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 (3) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

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
 
Process Evidence Code Pubs
acts_upstream_of_or_within cholesterol metabolic process IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within lipid metabolic process IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within lipid transport IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within steroid metabolic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
part_of high-density lipoprotein particle IEA
Inferred from Electronic Annotation
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

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

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_001301364.1NP_001288293.1  vigilin

    See identical proteins and their annotated locations for NP_001288293.1

    Status: VALIDATED

    Source sequence(s)
    AC108412, AK132355, AK161663, BB854571, CK638858
    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_001357556.1NP_001344485.1  vigilin

    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_133808.5NP_598569.1  vigilin

    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

    See identical proteins and their annotated locations for XP_006529140.1

    UniProtKB/Swiss-Prot
    Q8VDJ3
    UniProtKB/TrEMBL
    Q3U4Z7, Q3V1M8
    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

    See identical proteins and their annotated locations for XP_006529138.1

    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