Vangl2 (VANGL planar cell polarity 2) - Rat Genome Database

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Gene: Vangl2 (VANGL planar cell polarity 2) Mus musculus
Analyze
Symbol: Vangl2
Name: VANGL planar cell polarity 2
RGD ID: 1319788
MGI Page MGI
Description: Involved in several processes, including Wnt signaling pathway, planar cell polarity pathway; axon guidance; and morphogenesis of an epithelium. Acts upstream of or within several processes, including inner ear development; morphogenesis of an epithelium; and ventricular septum morphogenesis. Located in several cellular components, including basolateral plasma membrane; lateral plasma membrane; and stress fiber. Is active in glutamatergic synapse and postsynaptic density membrane. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; respiratory system epithelium; and sensory organ. Used to study neural tube defect. Human ortholog(s) of this gene implicated in neural tube defect. Orthologous to human VANGL2 (VANGL planar cell polarity protein 2).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: C530001F03Rik; L; lo; loop tail associated protein; loop-tail; loop-tail protein 1; loop-tail-associated protein; Lootl; Lp; Lpp1; Ltap; ska; ska17; ska; stbm; stra; strabismus; van Gogh-like protein 2; vang (van gogh)-like 2; vang-like 2 (van gogh, Drosophila); vang-like protein 2; Vang1l2
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391171,828,527 - 171,856,532 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1171,828,527 - 171,856,011 (-)EnsemblGRCm39 Ensembl
GRCm381172,000,960 - 172,027,318 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1172,000,960 - 172,028,444 (-)EnsemblGRCm38mm10GRCm38
MGSCv371173,934,502 - 173,957,399 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361173,841,046 - 173,863,943 (-)NCBIMGSCv36mm8
Celera1174,856,349 - 174,879,265 (-)NCBICelera
Cytogenetic Map1H3NCBI
cM Map179.54NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
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Original Reference(s)
Vangl2MouseKidney Neoplasms  ISOVANGL2 (Homo sapiens)2298799 RGD 
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Original Reference(s)
Vangl2Mouseautoimmune interstitial lung, joint, and kidney disease  ISOVANGL2 (Homo sapiens)8554872ClinVar Annotator: match by term: Autoimmune interstitial lung disease-arthritis syndromeClinVarPMID:28492532
Vangl2Mousegastrointestinal stromal tumor  ISOVANGL2 (Homo sapiens)8554872ClinVar Annotator: match by term: Gastrointestinal stromal tumorClinVarPMID:28492532
Vangl2Mousegenetic disease  ISOVANGL2 (Homo sapiens)8554872ClinVar Annotator: match by term: Inborn genetic diseasesClinVar 
Vangl2Mouseneural tube defect  ISOVANGL2 (Homo sapiens)8554872ClinVar more ...ClinVarPMID:20558380 more ...
Vangl2Mouseparathyroid carcinoma  ISOVANGL2 (Homo sapiens)8554872ClinVar Annotator: match by term: Parathyroid carcinomaClinVarPMID:28492532
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Original Reference(s)
Vangl2Mouseneural tube defect  ISOVANGL2 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:2373757
Vangl2Mousespina bifida  ISOVANGL2 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:21404367
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Original Reference(s)
Vangl2Mouseneural tube defect  IAGP 13592920OMIM:182940 more ...MouseDO 
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Original Reference(s)
Vangl2Mouseneural tube defect  ISOVANGL2 (Homo sapiens)7240710 OMIM 

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Original Reference(s)
Vangl2Mouse1,2-dimethylhydrazine increases expressionEXP 64804641 and 2-Dimethylhydrazine results in increased expression of VANGL2 mRNACTDPMID:22206623
Vangl2Mouse2,3,7,8-tetrachlorodibenzodioxine affects expressionEXP 6480464Tetrachlorodibenzodioxin affects the expression of VANGL2 mRNACTDPMID:21570461
Vangl2Mouse2,3,7,8-tetrachlorodibenzodioxine decreases expressionISOVangl2 (Rattus norvegicus)6480464Tetrachlorodibenzodioxin results in decreased expression of VANGL2 mRNACTDPMID:33387578
Vangl2Mouse2-hydroxypropanoic acid increases expressionISOVANGL2 (Homo sapiens)6480464Lactic Acid results in increased expression of VANGL2 mRNACTDPMID:30851411
Vangl2Mouse4,4'-sulfonyldiphenol decreases methylationEXP 6480464bisphenol S results in decreased methylation of VANGL2 exonCTDPMID:33297965
Vangl2Mouse5-fluorouracil multiple interactionsISOVANGL2 (Homo sapiens)6480464TP53 protein affects the reaction [Fluorouracil results in decreased expression of VANGL2 mRNA]CTDPMID:15016801
Vangl2Mouse6-propyl-2-thiouracil increases expressionISOVangl2 (Rattus norvegicus)6480464Propylthiouracil results in increased expression of VANGL2 mRNACTDPMID:24780913
Vangl2Mouse6-propyl-2-thiouracil decreases expressionISOVangl2 (Rattus norvegicus)6480464Propylthiouracil results in decreased expression of VANGL2 mRNACTDPMID:36843608
Vangl2Mouseactinomycin D increases expressionISOVANGL2 (Homo sapiens)6480464Dactinomycin results in increased expression of VANGL2 mRNACTDPMID:38460933
Vangl2Mouseactinomycin D multiple interactionsISOVANGL2 (Homo sapiens)6480464[Dactinomycin co-treated with nutlin 3] results in increased expression of VANGL2 mRNACTDPMID:38460933
Vangl2MouseAflatoxin B2 alpha increases methylationISOVANGL2 (Homo sapiens)6480464aflatoxin B2 results in increased methylation of VANGL2 intronCTDPMID:30157460
Vangl2Mousealdrin increases expressionEXP 6480464Aldrin results in increased expression of VANGL2 mRNACTDPMID:18579281
Vangl2Mousealpha-Zearalanol multiple interactionsISOVangl2 (Rattus norvegicus)6480464[Zeranol co-treated with perfluorooctanoic acid] results in decreased expression of VANGL2 mRNACTDPMID:35163327
Vangl2Mouseantirheumatic drug increases expressionISOVANGL2 (Homo sapiens)6480464Antirheumatic Agents results in increased expression of VANGL2 mRNACTDPMID:24449571
Vangl2Mousearsane multiple interactionsISOVANGL2 (Homo sapiens)6480464[[sodium arsenite results in increased abundance of Arsenic] co-treated with [manganese chloride results in increased abundance of Manganese]] results in increased expression of VANGL2 mRNA and [sodium arsenite results in increased abundance of Arsenic] which results in increased expression of VANGL2 mRNACTDPMID:39836092
Vangl2Mousearsenic atom multiple interactionsISOVANGL2 (Homo sapiens)6480464[[sodium arsenite results in increased abundance of Arsenic] co-treated with [manganese chloride results in increased abundance of Manganese]] results in increased expression of VANGL2 mRNA and [sodium arsenite results in increased abundance of Arsenic] which results in increased expression of VANGL2 mRNACTDPMID:39836092
Vangl2Mousebenzo[a]pyrene decreases expressionEXP 6480464Benzo(a)pyrene results in decreased expression of VANGL2 mRNACTDPMID:21569818 and PMID:22228805
Vangl2Mousebenzo[a]pyrene decreases methylationEXP 6480464Benzo(a)pyrene results in decreased methylation of VANGL2 intronCTDPMID:27901495
Vangl2Mousebenzo[a]pyrene affects methylationISOVANGL2 (Homo sapiens)6480464Benzo(a)pyrene affects the methylation of VANGL2 3' UTR more ...CTDPMID:27901495 and PMID:30157460
Vangl2Mousebis(2-ethylhexyl) phthalate increases expressionEXP 6480464Diethylhexyl Phthalate results in increased expression of VANGL2 mRNACTDPMID:34319233

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Biological Process
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Original Reference(s)
Vangl2Mouseanterior/posterior pattern specification acts_upstream_of_or_withinIMPMGI:18576422290270 PMID:18849982MGIPMID:18849982
Vangl2Mouseapical protein localization acts_upstream_of_or_withinIMPMGI:18576422290270 PMID:16495441 and PMID:16687519MGIPMID:16495441 and PMID:16687519
Vangl2Mousebranching involved in blood vessel morphogenesis involved_inTAS 2290270 PMID:20299672DFLATPMID:20299672
Vangl2Mousecardiac vascular smooth muscle cell differentiation involved_inTAS 2290270 PMID:20299672DFLATPMID:20299672
Vangl2Mousecell migration involved in kidney development involved_inIMP 2290270 PMID:20534871UniProtPMID:20534871
Vangl2Mousecochlea development acts_upstream_of_or_withinIGIMGI:987152290270 PMID:18066062MGIPMID:18066062
Vangl2Mousecochlea morphogenesis acts_upstream_of_or_withinIGIMGI:18885132290270 PMID:20940229MGIPMID:20940229
Vangl2Mousecochlea morphogenesis acts_upstream_of_or_withinIGIMGI:989582290270 PMID:17433286MGIPMID:17433286
Vangl2Mousecochlea morphogenesis acts_upstream_of_or_withinIGIMGI:26553332290270 PMID:20643356MGIPMID:20643356
Vangl2Mousecochlea morphogenesis acts_upstream_of_or_withinIMPMGI:18576422290270 PMID:16116426 and PMID:18606138MGIPMID:16116426 and PMID:18606138
Vangl2Mousecochlea morphogenesis acts_upstream_of_or_withinIGIMGI:1081002290270 PMID:19008950MGIPMID:19008950
Vangl2Mouseconvergent extension involved in axis elongation acts_upstream_of_or_withinIMPMGI:18576422290270 PMID:17229766MGIPMID:17229766
Vangl2Mouseconvergent extension involved in neural plate elongation acts_upstream_of_or_withinIMPMGI:18576422290270 PMID:16571627 and PMID:17229766MGIPMID:16571627 and PMID:17229766
Vangl2Mouseconvergent extension involved in neural plate elongation acts_upstream_of_or_withinIGIMGI:1066132290270 PMID:16571627MGIPMID:16571627
Vangl2Mouseconvergent extension involved in organogenesis acts_upstream_of_or_withinIGIMGI:989582290270 PMID:17433286MGIPMID:17433286
Vangl2Mousedigestive tract morphogenesis acts_upstream_of_or_withinIGIMGI:108078 more ...2290270 PMID:19300477MGIPMID:19300477
Vangl2Mousedopaminergic neuron axon guidance involved_inIMP 2290270 PMID:21106844ParkinsonsUK-UCLPMID:21106844
Vangl2Mouseepicardial cell to mesenchymal cell transition involved_inTAS 2290270 PMID:20299672DFLATPMID:20299672
Vangl2Mouseestablishment of body hair planar orientation acts_upstream_of_or_withinIMPMGI:18576422290270 PMID:18849982MGIPMID:18849982
Vangl2Mouseestablishment of epithelial cell polarity involved_inTAS 2290270 PMID:20299672DFLATPMID:20299672
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Cellular Component
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Molecular Function
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RGD Manual Annotations


  
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Original Reference(s)
Vangl2MouseWnt signaling, the planar cell polarity pathway   TAS 2293492 RGD 

Imported Annotations - KEGG (archival)

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Original Reference(s)
Vangl2MouseWnt signaling pathway  IEA 6907045 KEGGmmu:04310
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Original Reference(s)
Vangl2Mouseaberrant origin of the right subclavian artery  IAGP 5509061 MGIPMID:18296642
Vangl2Mouseabnormal abdominal wall morphology  IAGP 5509061 MGIPMID:25128525
Vangl2Mouseabnormal anus morphology  IAGP 5509061 MGIPMID:19701191
Vangl2Mouseabnormal aortic arch morphology  IAGP 5509061 MGIPMID:11440971
Vangl2Mouseabnormal astrocyte morphology  IAGP 5509061 MGIPMID:17566405
Vangl2Mouseabnormal auditory brainstem response  IAGP 5509061 MGIPMID:23986237
Vangl2Mouseabnormal body wall morphology  IAGP 5509061 MGIPMID:14039372
Vangl2Mouseabnormal brain development  IAGP 5509061 MGIPMID:14039372
Vangl2Mouseabnormal brain morphology  IEA 5509061 MGI 
Vangl2Mouseabnormal brain ventricle morphology  IAGP 5509061 MGIPMID:4230658
Vangl2Mouseabnormal brain ventricular system morphology  IAGP 5509061 MGIPMID:923728
Vangl2Mouseabnormal branching involved in lung morphogenesis  IAGP 5509061 MGIPMID:20223754
Vangl2Mouseabnormal cardiac outflow tract development  IAGP 5509061 MGIPMID:19008950
Vangl2Mouseabnormal cerebral hemisphere morphology  IAGP 5509061 MGIPMID:14039372
Vangl2Mouseabnormal cervical flexure morphology  IAGP 5509061 MGIPMID:11440971
Vangl2Mouseabnormal cochlea morphology  IAGP 5509061 MGIPMID:18296642
Vangl2Mouseabnormal cochlea morphology  IAGP 5509061 MGIPMID:23986237
Vangl2Mouseabnormal cochlear hair cell morphology  IAGP 5509061 MGIPMID:18606138
Vangl2Mouseabnormal cochlear hair cell morphology  IAGP 5509061 MGIPMID:25218921
Vangl2Mouseabnormal cochlear hair cell morphology  IAGP 5509061 MGIPMID:22363783
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Reference Title
Reference Citation
1. Physical and transcriptional map of a 3-Mb region of mouse chromosome 1 containing the gene for the neural tube defect mutant loop-tail (Lp). Eddleston J, etal., Genomics 1999 Mar 1;56(2):149-59.
2. Planar cell polarity signaling in vertebrates. Jones C and Chen P, Bioessays. 2007 Feb;29(2):120-32.
3. Structure and expression of Strabismus 1 gene on human chromosome 1q21-q23. Katoh M Int J Oncol. 2002 Jun;20(6):1197-203.
4. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
5. MGDs mouse GO annotations MGD data from the GO Consortium
6. MGD IEA MGD IEA
7. Prediction of the coding sequences of mouse homologues of KIAA gene: III. the complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, etal., DNA Res 2003 Aug 31;10(4):167-80.
8. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
9. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. Mouse MP Annotation Import Pipeline RGD automated import pipeline
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
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PMID:454356   PMID:540002   PMID:923728   PMID:1138408   PMID:1598821   PMID:2858942   PMID:3977771   PMID:4230658   PMID:4477997   PMID:5651230   PMID:5912439   PMID:5955164  
PMID:6249881   PMID:6650116   PMID:6693832   PMID:6991554   PMID:7607670   PMID:7607671   PMID:8088438   PMID:8200433   PMID:8563167   PMID:8719347   PMID:8722511   PMID:8889548  
PMID:9352104   PMID:9463361   PMID:9545534   PMID:9933565   PMID:10079519   PMID:10349636   PMID:10525207   PMID:10547923   PMID:11042159   PMID:11076861   PMID:11401431   PMID:11401449  
PMID:11431695   PMID:11440971   PMID:11707073   PMID:11709546   PMID:12477932   PMID:12499390   PMID:12724779   PMID:13435227   PMID:14039372   PMID:14512015   PMID:14610273   PMID:15195140  
PMID:15229603   PMID:15456783   PMID:15489334   PMID:15637299   PMID:15830372   PMID:16116426   PMID:16141072   PMID:16141073   PMID:16170314   PMID:16190875   PMID:16487141   PMID:16495441  
PMID:16571627   PMID:16687519   PMID:16962386   PMID:17119020   PMID:17174942   PMID:17229766   PMID:17376975   PMID:17433286   PMID:17556662   PMID:17566405   PMID:17767158   PMID:17967808  
PMID:18066062   PMID:18174466   PMID:18257070   PMID:18287559   PMID:18296642   PMID:18339676   PMID:18604206   PMID:18606138   PMID:18654668   PMID:18701545   PMID:18799693   PMID:18849982  
PMID:19008950   PMID:19012162   PMID:19100252   PMID:19100728   PMID:19210786   PMID:19285468   PMID:19300477   PMID:19332887   PMID:19363157   PMID:19497282   PMID:19701191   PMID:19706528  
PMID:19762422   PMID:19966784   PMID:20016102   PMID:20067994   PMID:20126399   PMID:20215345   PMID:20223754   PMID:20299672   PMID:20329788   PMID:20473291   PMID:20534871   PMID:20562861  
PMID:20630950   PMID:20643356   PMID:20653034   PMID:20704721   PMID:20843830   PMID:20940229   PMID:20962035   PMID:21035938   PMID:21062866   PMID:21106844   PMID:21246654   PMID:21262816  
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Vangl2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391171,828,527 - 171,856,532 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1171,828,527 - 171,856,011 (-)EnsemblGRCm39 Ensembl
GRCm381172,000,960 - 172,027,318 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1172,000,960 - 172,028,444 (-)EnsemblGRCm38mm10GRCm38
MGSCv371173,934,502 - 173,957,399 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361173,841,046 - 173,863,943 (-)NCBIMGSCv36mm8
Celera1174,856,349 - 174,879,265 (-)NCBICelera
Cytogenetic Map1H3NCBI
cM Map179.54NCBI
VANGL2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381160,400,564 - 160,428,670 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1160,400,564 - 160,428,678 (+)EnsemblGRCh38hg38GRCh38
GRCh371160,370,354 - 160,398,460 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361158,636,988 - 158,665,088 (+)NCBINCBI36Build 36hg18NCBI36
Build 341157,198,538 - 157,211,533NCBI
Celera1133,439,094 - 133,467,201 (+)NCBICelera
Cytogenetic Map1q23.2NCBI
HuRef1131,726,520 - 131,754,628 (+)NCBIHuRef
CHM1_11161,765,749 - 161,793,853 (+)NCBICHM1_1
T2T-CHM13v2.01159,537,640 - 159,565,747 (+)NCBIT2T-CHM13v2.0
Vangl2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81386,995,124 - 87,021,770 (-)NCBIGRCr8
mRatBN7.21384,462,731 - 84,489,404 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1384,465,527 - 84,489,378 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1386,968,878 - 86,992,738 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01388,369,149 - 88,393,001 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01385,553,752 - 85,577,558 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01390,379,203 - 90,405,627 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1390,380,632 - 90,405,591 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01394,902,313 - 94,928,719 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41387,964,426 - 87,988,364 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11388,152,106 - 88,178,412 (-)NCBI
Celera1384,077,622 - 84,101,482 (-)NCBICelera
Cytogenetic Map13q24NCBI
Vangl2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546812,161,843 - 12,189,547 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546812,162,084 - 12,189,322 (+)NCBIChiLan1.0ChiLan1.0
VANGL2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2189,423,065 - 89,451,027 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1189,163,031 - 89,190,979 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01135,754,897 - 135,783,031 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11139,676,595 - 139,704,281 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1139,683,745 - 139,704,281 (+)Ensemblpanpan1.1panPan2
VANGL2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13821,822,873 - 21,824,537 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3821,892,456 - 21,915,854 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03821,934,985 - 21,958,434 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3821,928,893 - 21,958,752 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13821,823,051 - 21,846,540 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03822,235,964 - 22,259,526 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03822,645,964 - 22,669,547 (-)NCBIUU_Cfam_GSD_1.0
Vangl2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244050586,512,192 - 6,526,199 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936740228,317 - 242,601 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936740228,377 - 242,318 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VANGL2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl490,051,277 - 90,080,635 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1490,051,994 - 90,080,701 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2497,945,552 - 97,971,014 (-)NCBISscrofa10.2Sscrofa10.2susScr3
VANGL2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1203,521,066 - 3,549,301 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl203,521,060 - 3,548,718 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660382,578,515 - 2,606,736 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vangl2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624794841,247 - 867,708 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624794841,302 - 867,717 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

.

.
Variants in Vangl2
1538 total Variants

Predicted Target Of
Summary Value
Count of predictions:3082
Count of miRNA genes:808
Interacting mature miRNAs:1034
Transcripts:ENSMUST00000027837, ENSMUST00000111263, ENSMUST00000111264, ENSMUST00000138714, ENSMUST00000148363, ENSMUST00000153662
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


1 to 10 of 116 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1301523Ccrs1_mcorpus callosum hemisphere surface size 1 (mouse)Not determined1139602037173602216Mouse
1558802Skmw6_mskeletal muscle weight 6 (mouse)Not determined1167954584195154279Mouse
10412185Hcs9_mhepatocarcinogenesis susceptibility 9 (mouse)Not determined163854690189303617Mouse
12790987Tgl5_mtriglyceride 5 (mouse)1160097157194097157Mouse
4141878Qrr1_mQTL rich region on chromosome 1 (mouse)Not determined170878743175320066Mouse
13824984Twq5_mtestis weight QTL 5 (mouse)13069992184732197Mouse
1357854Sle16_msystematic lupus erythematosus susceptibility 16 (mouse)Not determined1169038741177377587Mouse
4142389Scfr1_mstem cell frequency regulator 1 (mouse)Not determined171632048189303617Mouse
12790984Pcho7_mplasma cholesterol 7 (mouse)1147219390181219390Mouse
1301016Szs1_mseizure susceptibility 1 (mouse)Not determined1170878743174456436Mouse

1 to 10 of 116 rows
G42042  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381172,024,067 - 172,024,238UniSTSGRCm38
MGSCv371173,954,198 - 173,954,369UniSTSGRCm37
Celera1174,876,046 - 174,876,217UniSTS
Cytogenetic Map1H3UniSTS
cM Map193.4UniSTS
Vangl2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map1H3UniSTS
cM Map179.54UniSTS
Vangl2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map1H3UniSTS






1 to 23 of 23 rows
RefSeq Transcripts NM_033509 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006497051 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006497052 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006497053 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006497054 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017313008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036154494 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036154495 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_003947338 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004935287 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC158930 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF365875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK033128 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK046036 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK049613 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK082938 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK129311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AW046551 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY035370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC052195 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC075636 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY320814 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466520 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
1 to 23 of 23 rows

Ensembl Acc Id: ENSMUST00000027837   ⟹   ENSMUSP00000027837
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1171,828,527 - 171,854,862 (-)Ensembl
GRCm38.p6 Ensembl1172,000,960 - 172,027,295 (-)Ensembl
Ensembl Acc Id: ENSMUST00000111263   ⟹   ENSMUSP00000106894
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1171,828,527 - 171,856,011 (-)Ensembl
GRCm38.p6 Ensembl1172,000,960 - 172,028,444 (-)Ensembl
Ensembl Acc Id: ENSMUST00000111264   ⟹   ENSMUSP00000106895
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1171,831,996 - 171,854,862 (-)Ensembl
GRCm38.p6 Ensembl1172,004,429 - 172,027,295 (-)Ensembl
Ensembl Acc Id: ENSMUST00000138714   ⟹   ENSMUSP00000117736
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1171,837,500 - 171,854,835 (-)Ensembl
GRCm38.p6 Ensembl1172,009,933 - 172,027,268 (-)Ensembl
Ensembl Acc Id: ENSMUST00000148363
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1171,832,330 - 171,836,596 (-)Ensembl
GRCm38.p6 Ensembl1172,004,763 - 172,009,029 (-)Ensembl
Ensembl Acc Id: ENSMUST00000153662   ⟹   ENSMUSP00000116522
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1171,837,417 - 171,854,278 (-)Ensembl
GRCm38.p6 Ensembl1172,009,850 - 172,026,711 (-)Ensembl
Ensembl Acc Id: ENSMUST00000247845   ⟹   ENSMUSP00000159531
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1171,828,527 - 171,854,862 (-)Ensembl
RefSeq Acc Id: NM_033509   ⟹   NP_277044
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391171,828,527 - 171,854,862 (-)NCBI
GRCm381172,000,960 - 172,027,295 (-)NCBI
MGSCv371173,934,502 - 173,957,399 (-)RGD
Celera1174,856,349 - 174,879,265 (-)RGD
cM Map1 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006497051   ⟹   XP_006497114
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391171,828,527 - 171,854,881 (-)NCBI
GRCm381172,000,960 - 172,027,318 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006497052   ⟹   XP_006497115
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391171,828,527 - 171,854,352 (-)NCBI
GRCm381172,000,960 - 172,026,772 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006497053   ⟹   XP_006497116
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391171,828,527 - 171,854,377 (-)NCBI
GRCm381172,000,960 - 172,026,800 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006497054   ⟹   XP_006497117
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391171,828,527 - 171,843,210 (-)NCBI
GRCm381172,000,960 - 172,015,645 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017313008   ⟹   XP_017168497
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391171,828,527 - 171,842,378 (-)NCBI
GRCm381172,000,960 - 172,014,796 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036154494   ⟹   XP_036010387
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391171,828,527 - 171,850,531 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036154495   ⟹   XP_036010388
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391171,828,527 - 171,856,532 (-)NCBI
Sequence:
RefSeq Acc Id: XR_003947338
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391171,828,527 - 171,854,882 (-)NCBI
GRCm381172,000,960 - 172,027,318 (-)NCBI
Sequence:
RefSeq Acc Id: XR_004935287
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391171,828,527 - 171,854,882 (-)NCBI
Sequence:
1 to 5 of 14 rows
1 to 5 of 14 rows
RefSeq Acc Id: NP_277044   ⟸   NM_033509
- UniProtKB: Q923Z8 (UniProtKB/Swiss-Prot),   Q91ZD4 (UniProtKB/Swiss-Prot),   D3YY75 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006497114   ⟸   XM_006497051
- Peptide Label: isoform X1
- UniProtKB: Q923Z8 (UniProtKB/Swiss-Prot),   Q91ZD4 (UniProtKB/Swiss-Prot),   D3YY75 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006497115   ⟸   XM_006497052
- Peptide Label: isoform X1
- UniProtKB: Q923Z8 (UniProtKB/Swiss-Prot),   Q91ZD4 (UniProtKB/Swiss-Prot),   D3YY75 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006497116   ⟸   XM_006497053
- Peptide Label: isoform X1
- UniProtKB: Q923Z8 (UniProtKB/Swiss-Prot),   Q91ZD4 (UniProtKB/Swiss-Prot),   D3YY75 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006497117   ⟸   XM_006497054
- Peptide Label: isoform X1
- UniProtKB: Q923Z8 (UniProtKB/Swiss-Prot),   Q91ZD4 (UniProtKB/Swiss-Prot),   D3YY75 (UniProtKB/TrEMBL)
- Sequence:

Name Modeler Protein Id AA Range Protein Structure
AF-Q91ZD4-F1-model_v2 AlphaFold Q91ZD4 1-521 view protein structure

RGD ID:6875728
Promoter ID:EPDNEW_M1315
Type:initiation region
Name:Vangl2_1
Description:Mus musculus VANGL planar cell polarity 2 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381172,027,286 - 172,027,346EPDNEW
RGD ID:6818704
Promoter ID:MM_KWN:2885
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   MEF_B4
Transcripts:ENSMUST00000111263,   ENSMUST00000111264,   OTTMUST00000051233,   OTTMUST00000078154,   UC007DPI.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361173,957,306 - 173,957,806 (-)MPROMDB


1 to 21 of 21 rows
Database
Acc Id
Source(s)
Ensembl Genes ENSMUSG00000026556 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000027837 ENTREZGENE
  ENSMUST00000027837.13 UniProtKB/Swiss-Prot
  ENSMUST00000111263.9 UniProtKB/Swiss-Prot
InterPro VANGL UniProtKB/Swiss-Prot
KEGG Report mmu:93840 UniProtKB/Swiss-Prot
MGD MGI:2135272 ENTREZGENE
NCBI Gene 93840 ENTREZGENE
PANTHER PTHR20886 UniProtKB/Swiss-Prot
Pfam Strabismus UniProtKB/Swiss-Prot
PhenoGen Vangl2 PhenoGen
PIRSF Strabismus UniProtKB/Swiss-Prot
UniProt A0A991ELD2_MOUSE UniProtKB/TrEMBL
  D3YY75 ENTREZGENE, UniProtKB/TrEMBL
  D3Z374_MOUSE UniProtKB/TrEMBL
  D3Z4X2_MOUSE UniProtKB/TrEMBL
  Q6ZPV8_MOUSE UniProtKB/TrEMBL
  Q91ZD4 ENTREZGENE
  Q923Z8 ENTREZGENE
  VANG2_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q923Z8 UniProtKB/Swiss-Prot
1 to 21 of 21 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-10-31 Vangl2  VANGL planar cell polarity 2    vang-like 2 (van gogh, Drosophila)  Symbol and/or name change 5135510 APPROVED