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Vta1 vesicle (multivesicular body) trafficking 1 [ Mus musculus (house mouse) ]

Gene ID: 66201, updated on 2-Nov-2024

Summary

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Official Symbol
Vta1provided by MGI
Official Full Name
vesicle (multivesicular body) trafficking 1provided by MGI
Primary source
MGI:MGI:1913451
See related
Ensembl:ENSMUSG00000019868 AllianceGenome:MGI:1913451
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
LIP5; SBP1; 1110001D18Rik; 1110059P08Rik
Summary
Predicted to be involved in late endosome to vacuole transport via multivesicular body sorting pathway. Located in cytoplasm. Is expressed in 1st branchial arch; cortical plate; fronto-nasal process; heart; and limb. Orthologous to human VTA1 (vesicle trafficking 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in CNS E18 (RPKM 23.2), whole brain E14.5 (RPKM 22.3) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Vta1 in Genome Data Viewer
Location:
10 A2; 10 5.5 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (14531077..14581233, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (14654760..14705542, complement)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_25828 Neighboring gene predicted gene, 40603 Neighboring gene adhesion G protein-coupled receptor G6 Neighboring gene VISTA enhancer mm116 Neighboring gene STARR-seq mESC enhancer starr_25829 Neighboring gene STARR-seq mESC enhancer starr_25830 Neighboring gene STARR-seq mESC enhancer starr_25831 Neighboring gene ribosomal protein L23A pseudogene Neighboring gene STARR-seq mESC enhancer starr_25832 Neighboring gene STARR-seq mESC enhancer starr_25835 Neighboring gene STARR-seq mESC enhancer starr_25837 Neighboring gene predicted gene, 57851 Neighboring gene STARR-seq mESC enhancer starr_25839 Neighboring gene RIKEN cDNA 1700016L04 gene Neighboring gene STARR-positive B cell enhancer mm9_chr10:14425245-14425545 Neighboring gene gap junction protein, epsilon 1 Neighboring gene heat shock protein 8 pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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

Bibliography

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Related articles in PubMed

  1. LIP5 interacts with aquaporin 2 and facilitates its lysosomal degradation. van Balkom BW, et al. J Am Soc Nephrol, 2009 May. PMID 19357255, Free PMC Article
  2. The lysosomal trafficking regulator interacting protein-5 localizes mainly in epithelial cells. Boone M, et al. J Mol Histol, 2010 Feb. PMID 20358264
  3. Mammalian class E Vps proteins, SBP1 and mVps2/CHMP2A, interact with and regulate the function of an AAA-ATPase SKD1/Vps4B. Fujita H, et al. J Cell Sci, 2004 Jun 15. PMID 15173323
  4. ESCRT-dependent control of craniofacial morphogenesis with concomitant perturbation of NOTCH signaling. Hermosilla Aguayo V, et al. Dev Biol, 2023 Nov. PMID 37573008
  5. Interactome mapping of the phosphatidylinositol 3-kinase-mammalian target of rapamycin pathway identifies deformed epidermal autoregulatory factor-1 as a new glycogen synthase kinase-3 interactor. Pilot-Storck F, et al. Mol Cell Proteomics, 2010 Jul. PMID 20368287, Free PMC Article

See all (23) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LIP5 protein expression in a mouse tissue panel and various rodent and human tissues were studied.[LIP5]
    Title: The lysosomal trafficking regulator interacting protein-5 localizes mainly in epithelial cells.
Submit: New GeneRIF Correction

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Readthrough Gm57851

Readthrough gene: Gm57851, Included gene: Gje1

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in late endosome to vacuole transport via multivesicular body sorting pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in late endosome to vacuole transport via multivesicular body sorting pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in multivesicular body sorting pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in protein transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in endosome membrane IEA
Inferred from Electronic Annotation
more info
  
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  
is_active_in multivesicular body IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
vacuolar protein sorting-associated protein VTA1 homolog
Names
SKD1-binding protein 1
Vps20-associated 1 homolog
lysosomal trafficking regulator interacting protein-5

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_001429337.1 → NP_001416266.1  vacuolar protein sorting-associated protein VTA1 homolog isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC159336

  2. NM_001429338.1 → NP_001416267.1  vacuolar protein sorting-associated protein VTA1 homolog isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC159336

  3. NM_001429339.1 → NP_001416268.1  vacuolar protein sorting-associated protein VTA1 homolog isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC159336

  4. NM_001429340.1 → NP_001416269.1  vacuolar protein sorting-associated protein VTA1 homolog isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC159336

  5. NM_001429341.1 → NP_001416270.1  vacuolar protein sorting-associated protein VTA1 homolog isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC159336

  6. NM_025418.4 → NP_079694.2  vacuolar protein sorting-associated protein VTA1 homolog isoform 1

    See identical proteins and their annotated locations for NP_079694.2

    Status: VALIDATED

    Source sequence(s)
    AC159336
    Consensus CDS
    CCDS23705.1
    UniProtKB/Swiss-Prot
    Q9CR26
    UniProtKB/TrEMBL
    Q3V4B3
    Related
    ENSMUSP00000119829.2, ENSMUST00000154132.8
    Conserved Domains (2) summary
    pfam04652
    Location:22 → 152
    Vta1; Vta1 like
    cl28408
    Location:183 → 264
    UBQ; Ubiquitin homologues

RNA

  1. NR_190724.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC159336

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_000076.7 Reference GRCm39 C57BL/6J

    Range
    14531077..14581233 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9CR26.1 GenPept UniProtKB/Swiss-Prot:Q9CR26

Gene LinkOut

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