Vangl2 VANGL planar cell polarity protein 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Vangl2provided by RGD
Official Full Name: VANGL planar cell polarity protein 2provided by RGD
Primary source: RGD:1309442
See related: EnsemblRapid:ENSRNOG00000004889 AllianceGenome:RGD:1309442
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
Also known as: Ltap
Summary: Predicted to be involved in several processes, including Wnt signaling pathway, planar cell polarity pathway; axon guidance; and morphogenesis of an epithelium. Predicted to act upstream of or within several processes, including inner ear development; morphogenesis of an epithelium; and ventricular septum morphogenesis. Is active in glutamatergic synapse and postsynaptic density membrane. Human ortholog(s) of this gene implicated in neural tube defect. Orthologous to human VANGL2 (VANGL planar cell polarity protein 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 23.5), Lung (RPKM 23.2) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q24

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (86995124..87021770, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (84462731..84489404, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (90379203..90405627, complement)

Chromosome 13 - NC_086031.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Spermatid planar cell polarity was regulated by Vangl2.
Title: Vangl2 regulates spermatid planar cell polarity through microtubule (MT)-based cytoskeleton in the rat testis.
Wnt/JNK activation induced cytoskeleton rearrangement but failed to activate these effects in cells lacking Vangl2.
Title: Vangl2 is essential for myocardial remodeling activated by Wnt/JNK signaling.
In summary, the PCP protein Vangl2 is an ectoplasmic specialisation regulator through its effects on actin microfilaments in the testis.
Title: Planar Cell Polarity (PCP) Protein Vangl2 Regulates Ectoplasmic Specialization Dynamics via Its Effects on Actin Microfilaments in the Testes of Male Rats.
The synaptic localisation of Vangl2 was categorised into two types: overlapping co-localisation with postsynaptic density (PSD)-95 or highly correlated but complementary pattern of association with PSD-95.
Title: PDZ interaction of Vangl2 links PSD-95 and Prickle2 but plays only a limited role in the synaptic localisation of Vangl2.
Vangl2 plays a role in the establishment and/or maintenance of the postsynaptic compartments.
Title: The planar cell polarity protein Vangl2 is involved in postsynaptic compartmentalization.
Vangl2, a core planar cell polarity signaling pathway component, appears to have a functional role in neural complex formation.
Title: The planar cell polarity protein Vangl2 bidirectionally regulates dendritic branching in cultured hippocampal neurons.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH138077 (e-PCR)
- UniSTS:220164

Vangl2 (e-PCR), detects polymorphism
- UniSTS:532468

Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
acts_upstream_of_or_within Rho protein signal transduction	ISO Inferred from Sequence Orthology more info
involved_in Wnt signaling pathway, planar cell polarity pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within Wnt signaling pathway, planar cell polarity pathway	ISO Inferred from Sequence Orthology more info
involved_in Wnt signaling pathway, planar cell polarity pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within anterior/posterior pattern specification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within apical protein localization	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in cell migration involved in kidney development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cochlea development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cochlea morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within convergent extension involved in axis elongation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within convergent extension involved in neural plate elongation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within convergent extension involved in organogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within digestive tract morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in dopaminergic neuron axon guidance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of body hair planar orientation	ISO Inferred from Sequence Orthology more info
involved_in establishment of planar polarity	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within establishment of planar polarity	ISO Inferred from Sequence Orthology more info
involved_in establishment of planar polarity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of planar polarity involved in neural tube closure	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment or maintenance of epithelial cell apical/basal polarity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glomerulus development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hair follicle development	ISO Inferred from Sequence Orthology more info
involved_in heart looping	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heparan sulfate proteoglycan biosynthetic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear receptor cell development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear receptor cell stereocilium organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within kidney morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lateral sprouting involved in lung morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within membranous septum morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within muscular septum morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural tube closure	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within non-canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within non-motile cilium assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within orthogonal dichotomous subdivision of terminal units involved in lung branching morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within planar dichotomous subdivision of terminal units involved in lung branching morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of JUN kinase activity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within post-anal tail morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of actin cytoskeleton organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of establishment of planar polarity	ISO Inferred from Sequence Orthology more info
involved_in regulation of synapse pruning	ISO Inferred from Sequence Orthology more info
involved_in serotonergic neuron axon guidance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within somatic stem cell division	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within somatic stem cell population maintenance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within wound healing	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in COPII-coated ER to Golgi transport vesicle	ISO Inferred from Sequence Orthology more info
located_in apical cytoplasm	ISO Inferred from Sequence Orthology more info
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in basolateral plasma membrane	ISO Inferred from Sequence Orthology more info
located_in cell periphery	ISO Inferred from Sequence Orthology more info
located_in cell pole	ISO Inferred from Sequence Orthology more info
located_in cell-cell junction	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
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
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic density membrane	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in postsynaptic density membrane	ISO Inferred from Sequence Orthology more info
located_in stress fiber	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: vang-like protein 2

Names: loop tail associated protein; van Gogh-like protein 2; vang-like 2 (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)

NM_001105969.1 → NP_001099439.1 vang-like protein 2

See identical proteins and their annotated locations for NP_001099439.1

Status: PROVISIONAL

Source sequence(s)

CH473985

UniProtKB/Swiss-Prot

P84889

UniProtKB/TrEMBL

A6JG15

Related

ENSRNOP00000006849.6, ENSRNOT00000006849.7

Conserved Domains (1) summary

pfam06638
Location:34 → 521

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

NC_086031.1 Reference GRCr8

Range

86995124..87021770 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006250277.5 → XP_006250339.1 vang-like protein 2 isoform X1

See identical proteins and their annotated locations for XP_006250339.1

UniProtKB/Swiss-Prot

P84889

UniProtKB/TrEMBL

A6JG15

Conserved Domains (1) summary

pfam06638
Location:34 → 521

Strabismus; Strabismus protein
XM_006250276.5 → XP_006250338.1 vang-like protein 2 isoform X1

See identical proteins and their annotated locations for XP_006250338.1

UniProtKB/Swiss-Prot

P84889

UniProtKB/TrEMBL

A6JG15

Conserved Domains (1) summary

pfam06638
Location:34 → 521

Strabismus; Strabismus protein
XM_017598713.3 → XP_017454202.1 vang-like protein 2 isoform X1

UniProtKB/Swiss-Prot

P84889

UniProtKB/TrEMBL

A6JG15

Conserved Domains (1) summary

pfam06638
Location:34 → 521

Strabismus; Strabismus protein
XM_017598712.3 → XP_017454201.1 vang-like protein 2 isoform X1

UniProtKB/Swiss-Prot

P84889

UniProtKB/TrEMBL

A6JG15

Conserved Domains (1) summary

pfam06638
Location:34 → 521

Strabismus; Strabismus protein
XM_039090514.2 → XP_038946442.1 vang-like protein 2 isoform X1

UniProtKB/Swiss-Prot

P84889

UniProtKB/TrEMBL

A6JG15

Conserved Domains (1) summary

pfam06638
Location:34 → 521

Strabismus; Strabismus protein
XM_039090512.2 → XP_038946440.1 vang-like protein 2 isoform X1

UniProtKB/Swiss-Prot

P84889

UniProtKB/TrEMBL

A6JG15

Conserved Domains (1) summary

pfam06638
Location:34 → 521

Strabismus; Strabismus protein
XM_039090513.2 → XP_038946441.1 vang-like protein 2 isoform X1

UniProtKB/Swiss-Prot

P84889

UniProtKB/TrEMBL

A6JG15

Conserved Domains (1) summary

pfam06638
Location:34 → 521

Strabismus; Strabismus protein