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Vangl1 VANGL planar cell polarity 1 [ Mus musculus (house mouse) ]

Gene ID: 229658, updated on 8-Nov-2022

Summary

Official Symbol
Vangl1provided by MGI
Official Full Name
VANGL planar cell polarity 1provided by MGI
Primary source
MGI:MGI:2159344
See related
Ensembl:ENSMUSG00000027860 AllianceGenome:MGI:2159344
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
Lpp2; Stb2; Stbm; Kitenin
Summary
Acts upstream of or within pigmentation. Located in lateral plasma membrane. Is expressed in several structures, including central nervous system; cochlea; future brain; notochord; and skin. Used to study neural tube defect. 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
Ubiquitous expression in liver E14.5 (RPKM 5.6), liver E14 (RPKM 5.3) and 27 other tissues See more
Orthologs
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Genomic context

See Vangl1 in Genome Data Viewer
Location:
3; 3 F2.2
Exon count:
10
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (102060899..102112012, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (102153583..102204744, complement)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene DnaJ (Hsp40) homolog, subfamily B, member 6 pseudogene Neighboring gene calsequestrin 2 Neighboring gene predicted gene 16160 Neighboring gene RIKEN cDNA A230001M10 gene Neighboring gene predicted gene, 40110

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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 multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within pigmentation IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in lateral plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
vang-like protein 1
Names
KAI1 COOH-terminal interacting tetraspanin
loop-tail protein 2
strabismus
van Gogh-like protein 1
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_177545.5NP_808213.2  vang-like protein 1

    See identical proteins and their annotated locations for NP_808213.2

    Status: VALIDATED

    Source sequence(s)
    AC159255, AF481860, BY729182
    Consensus CDS
    CCDS17686.1
    UniProtKB/Swiss-Prot
    Q80Z96, Q8QZT3
    Related
    ENSMUSP00000029453.8, ENSMUST00000029453.13
    Conserved Domains (1) summary
    pfam06638
    Location:26526
    Strabismus; Strabismus protein

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000069.7 Reference GRCm39 C57BL/6J

    Range
    102060899..102112012 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006501395.5XP_006501458.1  vang-like protein 1 isoform X1

    Conserved Domains (1) summary
    pfam06638
    Location:25539
    Strabismus; Strabismus protein

RNA

  1. XR_004941312.1 RNA Sequence

  2. XR_004941311.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001165951.2: Suppressed sequence

    Description
    NM_001165951.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.