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    Vangl1 VANGL planar cell polarity protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 690366, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Vangl1provided by RGD
    Official Full Name
    VANGL planar cell polarity protein 1provided by RGD
    Primary source
    RGD:1597324
    See related
    Ensembl:ENSRNOG00000016477 AllianceGenome:RGD:1597324
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to act upstream of or within pigmentation. Predicted to be located in lateral plasma membrane. Predicted to be active in plasma membrane. Human ortholog(s) of this gene implicated in caudal regression syndrome and neural tube defect. Orthologous to human VANGL1 (VANGL planar cell polarity protein 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 64.6), Kidney (RPKM 64.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Vangl1 in Genome Data Viewer
    Location:
    2q34
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (192277762..192326151, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (189586681..189637609, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (204575592..204625835, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene DnaJ heat shock protein family (Hsp40) member B6, pseudogene 1 Neighboring gene calsequestrin 2 Neighboring gene basic proline-rich protein-like Neighboring gene uncharacterized LOC102549693 Neighboring gene uncharacterized LOC134485940

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Comparative genomics on Vangl1 and Vangl2 genes. Katoh Y, et al. Int J Oncol, 2005 May. PMID 15809738
    2. Planar cell polarity effector gene Intu regulates cell fate-specific differentiation of keratinocytes through the primary cilia. Dai D, et al. Cell Death Differ, 2013 Jan. PMID 22935613, Free PMC Article
    3. Identification of genes important for cutaneous function revealed by a large scale reverse genetic screen in the mouse. DiTommaso T, et al. PLoS Genet, 2014 Oct. PMID 25340873, Free PMC Article
    4. All Dact (Dapper/Frodo) scaffold proteins dimerize and exhibit conserved interactions with Vangl, Dvl, and serine/threonine kinases. Kivimäe S, et al. BMC Biochem, 2011 Jun 30. PMID 21718540, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within pigmentation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in lateral plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    vang-like protein 1
    Names
    vang, van gogh-like 1
    vang-like 1 (van gogh, Drosophila)

    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_001109584.1 → NP_001103054.1  vang-like protein 1

      See identical proteins and their annotated locations for NP_001103054.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474015
      UniProtKB/TrEMBL
      A0A8I5ZRZ0, A6K3I7
      Related
      ENSRNOP00000080993.1, ENSRNOT00000113312.1
      Conserved Domains (1) summary
      pfam06638
      Location:25 → 526
      Strabismus; Strabismus protein

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086020.1 Reference GRCr8

      Range
      192277762..192326151 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006233054.5 → XP_006233116.1  vang-like protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZRZ0, D3ZKC8
      Related
      ENSRNOP00000022182.6
      Conserved Domains (1) summary
      pfam06638
      Location:25 → 539
      Strabismus; Strabismus protein
    Nucleotide Protein Strain
    Heading Accession and Version

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