WNT3A (Wnt family member 3A) - Rat Genome Database

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Gene: WNT3A (Wnt family member 3A) Homo sapiens
Analyze
Symbol: WNT3A
Name: Wnt family member 3A
RGD ID: 1317606
HGNC Page HGNC
Description: Enables co-receptor binding activity and receptor ligand activity. Involved in several processes, including canonical Wnt signaling pathway involved in heart development; positive regulation of cell differentiation; and positive regulation of macromolecule metabolic process. Located in extracellular space. Part of Wnt-Frizzled-LRP5/6 complex. Is active in glutamatergic synapse.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: MGC119418; MGC119419; MGC119420; protein Wnt-3a; wingless-type MMTV integration site family member 3A; wingless-type MMTV integration site family, member 3A
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1228,006,998 - 228,061,271 (+)EnsemblGRCh38hg38GRCh38
GRCh381228,006,998 - 228,067,113 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371228,194,699 - 228,248,972 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361226,261,375 - 226,315,584 (+)NCBINCBI36hg18NCBI36
Build 341224,501,486 - 224,555,696NCBI
Celera1201,384,988 - 201,439,196 (+)NCBI
Cytogenetic Map1q42.13NCBI
HuRef1198,726,487 - 198,764,776 (+)NCBIHuRef
CHM1_11229,467,104 - 229,521,343 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
anterior/posterior pattern specification  (ISO)
axis elongation involved in somitogenesis  (IEA,ISO)
axon guidance  (IEA,ISO)
axonogenesis  (ISO)
calcium ion transmembrane transport via low voltage-gated calcium channel  (IEA)
canonical Wnt signaling pathway  (IBA,IDA,IMP,ISO)
canonical Wnt signaling pathway involved in cardiac muscle cell fate commitment  (IDA)
cardiac muscle cell fate commitment  (ISO)
cell fate commitment  (IBA)
cell population proliferation  (IMP)
cell proliferation in forebrain  (ISS)
cell proliferation in midbrain  (TAS)
cellular protein localization  (IEA,ISO)
cellular response to retinoic acid  (ISS)
COP9 signalosome assembly  (ISS)
determination of left/right symmetry  (ISO)
dorsal/ventral neural tube patterning  (IEA,ISO)
extracellular matrix organization  (IEA,ISO)
heart looping  (IEA,ISO)
hemopoiesis  (IEA,ISO)
hippocampus development  (IEA,ISO)
in utero embryonic development  (IEA,ISO)
inner ear morphogenesis  (IEA,ISO)
mammary gland development  (IEA,ISO)
mesoderm development  (ISO)
midbrain development  (ISO)
modulation of chemical synaptic transmission  (IEA)
negative regulation of axon extension involved in axon guidance  (IEA,ISO)
negative regulation of dopaminergic neuron differentiation  (IEA)
negative regulation of fat cell differentiation  (IEA,ISO)
negative regulation of heart induction by canonical Wnt signaling pathway  (IDA)
negative regulation of neurogenesis  (ISS)
negative regulation of neuron death  (IEA)
negative regulation of neuron projection development  (ISS)
neurogenesis  (ISO)
neuron differentiation  (IBA,ISS)
osteoblast differentiation  (IEA,ISO)
paraxial mesodermal cell fate commitment  (IEA,ISO)
platelet activation  (ISO)
platelet aggregation  (IEA,ISO)
positive regulation of B cell proliferation  (IEA,ISO)
positive regulation of canonical Wnt signaling pathway  (IDA,ISO)
positive regulation of canonical Wnt signaling pathway involved in controlling type B pancreatic cell proliferation  (IEA)
positive regulation of cardiac muscle cell differentiation  (IDA)
positive regulation of cell population proliferation  (ISO,ISS)
positive regulation of cell-cell adhesion mediated by cadherin  (IEA,ISO)
positive regulation of collateral sprouting in absence of injury  (IEA,ISO)
positive regulation of cysteine-type endopeptidase activity involved in apoptotic process  (IEA,ISO)
positive regulation of cytokine production  (IEA,ISO)
positive regulation of dermatome development  (IDA)
positive regulation of DNA-binding transcription factor activity  (IEA)
positive regulation of gene expression  (IDA)
positive regulation of hepatocyte proliferation  (IEA,ISO)
positive regulation of mesodermal cell fate specification  (IDA)
positive regulation of neural precursor cell proliferation  (IEA,ISO)
positive regulation of peptidyl-serine phosphorylation  (IDA)
positive regulation of protein binding  (IDA)
positive regulation of protein kinase activity  (ISO)
positive regulation of protein localization to plasma membrane  (IEA)
positive regulation of protein phosphorylation  (IDA)
positive regulation of protein tyrosine kinase activity  (IEA,ISO)
positive regulation of receptor internalization  (IDA)
positive regulation of skeletal muscle tissue development  (IEA)
positive regulation of transcription by RNA polymerase II  (IDA,ISO,ISS)
positive regulation of transcription, DNA-templated  (ISO,ISS)
post-anal tail morphogenesis  (IEA,ISO)
postsynapse to nucleus signaling pathway  (IEA)
presynapse assembly  (TAS)
regulation of axonogenesis  (ISO)
regulation of cell differentiation  (ISO)
regulation of microtubule cytoskeleton organization  (IEA,ISO)
regulation of presynapse assembly  (IDA,IMP)
regulation of RNA biosynthetic process  (ISO)
regulation of synapse organization  (IDA,IMP)
secondary palate development  (IMP)
skeletal muscle cell differentiation  (IEA,ISO)
somatic stem cell division  (IEA,ISO)
somitogenesis  (ISO)
spinal cord association neuron differentiation  (IEA,ISO)
synaptic vesicle recycling  (TAS)
Wnt signaling pathway  (ISO)
Wnt signaling pathway involved in forebrain neuroblast division  (IEA,ISO)
Wnt signaling pathway involved in midbrain dopaminergic neuron differentiation  (TAS)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Human Phenotype
References

Additional References at PubMed
PMID:8167409   PMID:8168088   PMID:10557084   PMID:10654605   PMID:10866835   PMID:11414706   PMID:11788904   PMID:11836627   PMID:12052822   PMID:12067714   PMID:12477932   PMID:12556519  
PMID:12629517   PMID:12805222   PMID:12897152   PMID:14702039   PMID:14722104   PMID:14739301   PMID:15454084   PMID:15489334   PMID:16227623   PMID:16344560   PMID:16565323   PMID:16621789  
PMID:16710414   PMID:16799642   PMID:16890161   PMID:17137849   PMID:17211448   PMID:17458904   PMID:17544413   PMID:17546602   PMID:17595165   PMID:17698587   PMID:17822920   PMID:17888180  
PMID:17976063   PMID:17990294   PMID:18242164   PMID:18305214   PMID:18344425   PMID:18413325   PMID:18462958   PMID:18505824   PMID:18555765   PMID:18615587   PMID:18632632   PMID:18719101  
PMID:18724388   PMID:18941195   PMID:18986540   PMID:19072540   PMID:19101069   PMID:19144919   PMID:19265664   PMID:19351711   PMID:19453261   PMID:19523451   PMID:19736317   PMID:19816934  
PMID:19881541   PMID:19883499   PMID:19887570   PMID:19901330   PMID:19910923   PMID:20085589   PMID:20093360   PMID:20137080   PMID:20227366   PMID:20336604   PMID:20347274   PMID:20393562  
PMID:20412773   PMID:20559569   PMID:20634891   PMID:20693288   PMID:20723538   PMID:20735988   PMID:20932509   PMID:21123170   PMID:21422228   PMID:21536751   PMID:21600099   PMID:21606194  
PMID:21667018   PMID:21670201   PMID:21873635   PMID:21944579   PMID:21957254   PMID:22005028   PMID:22110662   PMID:22396540   PMID:22550094   PMID:22682250   PMID:22705156   PMID:22714865  
PMID:22726442   PMID:22784633   PMID:22789636   PMID:22824791   PMID:22876125   PMID:22941468   PMID:22988876   PMID:23168335   PMID:23204070   PMID:23268410   PMID:23276938   PMID:23337036  
PMID:23382209   PMID:23396967   PMID:23396968   PMID:23509994   PMID:23559372   PMID:23797875   PMID:23893409   PMID:23954131   PMID:23999248   PMID:24052942   PMID:24209998   PMID:24265322  
PMID:24321072   PMID:24340027   PMID:24346024   PMID:24431302   PMID:24449494   PMID:24510127   PMID:24564183   PMID:24584697   PMID:24686518   PMID:24736394   PMID:24768165   PMID:24817932  
PMID:24841207   PMID:24991956   PMID:25143377   PMID:25147340   PMID:25174704   PMID:25301448   PMID:25359619   PMID:25425204   PMID:25499541   PMID:25556760   PMID:25572698   PMID:25651906  
PMID:25656539   PMID:25805505   PMID:25848952   PMID:26186194   PMID:26266404   PMID:26577850   PMID:26643293   PMID:26687115   PMID:26902720   PMID:27076768   PMID:27138857   PMID:27310371  
PMID:27341528   PMID:27375026   PMID:27391060   PMID:27411105   PMID:27499692   PMID:27557659   PMID:27633010   PMID:27641635   PMID:27806326   PMID:27852072   PMID:28209613   PMID:28223136  
PMID:28266728   PMID:28351228   PMID:28358374   PMID:28366633   PMID:28435069   PMID:28514442   PMID:28549605   PMID:28607150   PMID:28627706   PMID:28655768   PMID:28694190   PMID:28733458  
PMID:28754322   PMID:28756229   PMID:28902357   PMID:29044119   PMID:29044515   PMID:29483204   PMID:29678905   PMID:29948330   PMID:29991769   PMID:30056839   PMID:30145863   PMID:30171955  
PMID:30256193   PMID:30479059   PMID:30509387   PMID:30569135   PMID:30622240   PMID:30720151   PMID:30896857   PMID:31074015   PMID:31111621   PMID:31262711   PMID:31278963   PMID:31683769  
PMID:31693779   PMID:31727925   PMID:31756673   PMID:31851619   PMID:31858558   PMID:31961998   PMID:32023461   PMID:32570120   PMID:32601235   PMID:32755451   PMID:32961708   PMID:33045079  
PMID:33091767   PMID:33283877   PMID:33331430   PMID:33629292   PMID:33760109   PMID:34109708   PMID:34315898  


Genomics

Comparative Map Data
WNT3A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1228,006,998 - 228,061,271 (+)EnsemblGRCh38hg38GRCh38
GRCh381228,006,998 - 228,067,113 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371228,194,699 - 228,248,972 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361226,261,375 - 226,315,584 (+)NCBINCBI36hg18NCBI36
Build 341224,501,486 - 224,555,696NCBI
Celera1201,384,988 - 201,439,196 (+)NCBI
Cytogenetic Map1q42.13NCBI
HuRef1198,726,487 - 198,764,776 (+)NCBIHuRef
CHM1_11229,467,104 - 229,521,343 (+)NCBICHM1_1
Wnt3a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391159,138,862 - 59,181,577 (-)NCBIGRCm39mm39
GRCm39 Ensembl1159,138,859 - 59,181,578 (-)Ensembl
GRCm381159,248,036 - 59,290,751 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1159,248,033 - 59,290,752 (-)EnsemblGRCm38mm10GRCm38
MGSCv371159,061,538 - 59,104,253 (-)NCBIGRCm37mm9NCBIm37
MGSCv361159,064,231 - 59,106,946 (-)NCBImm8
Celera1164,013,041 - 64,056,135 (-)NCBICelera
Cytogenetic Map11B1.3NCBI
cM Map1137.17NCBI
Wnt3a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21044,034,174 - 44,078,463 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1044,034,194 - 44,078,324 (-)Ensembl
Rnor_6.01045,598,898 - 45,643,151 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1045,598,912 - 45,638,035 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01045,354,369 - 45,398,647 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41045,553,682 - 45,594,983 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11045,567,304 - 45,609,958 (-)NCBI
Celera1043,297,443 - 43,336,315 (-)NCBICelera
Cytogenetic Map10q22NCBI
Wnt3a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955581350,889 - 382,541 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955581351,375 - 382,541 (-)NCBIChiLan1.0ChiLan1.0
WNT3A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11208,628,706 - 208,674,469 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1208,628,706 - 208,674,469 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01203,409,294 - 203,463,214 (+)NCBIMhudiblu_PPA_v0panPan3
WNT3A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.114864,393 - 899,698 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl14863,424 - 896,412 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha14241,282 - 287,493 (+)NCBI
ROS_Cfam_1.014584,578 - 630,800 (-)NCBI
UMICH_Zoey_3.114775,380 - 821,576 (-)NCBI
UNSW_CanFamBas_1.014556,162 - 602,358 (-)NCBI
UU_Cfam_GSD_1.014542,112 - 590,168 (-)NCBI
Wnt3a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721387,809,460 - 87,851,090 (-)NCBI
SpeTri2.0NW_004936864150,742 - 179,205 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
WNT3A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl251,154,086 - 51,202,176 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1251,153,978 - 51,203,678 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2253,908,485 - 53,958,148 (-)NCBISscrofa10.2Sscrofa10.2susScr3
WNT3A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1251,664,316 - 1,675,006 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660551,547,656 - 1,601,952 (-)NCBIVero_WHO_p1.0
Wnt3a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624937816,752 - 845,866 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D1S1601  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371228,228,621 - 228,228,837UniSTSGRCh37
Build 361226,295,244 - 226,295,460RGDNCBI36
Celera1201,418,856 - 201,419,072RGD
Cytogenetic Map1q42UniSTS
HuRef1198,744,748 - 198,744,964UniSTS
TNG Radiation Hybrid Map1114585.0UniSTS
RH123801  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371228,244,787 - 228,245,070UniSTSGRCh37
Build 361226,311,410 - 226,311,693RGDNCBI36
Celera1201,435,022 - 201,435,305RGD
Cytogenetic Map1q42UniSTS
HuRef1198,760,591 - 198,760,874UniSTS
TNG Radiation Hybrid Map190368.0UniSTS

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
MIR15Ahsa-miR-15a-5pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI18931683
MIR15Ahsa-miR-15a-5pOncomiRDBexternal_infoNANA21106054

Predicted Target Of
Summary Value
Count of predictions:1484
Count of miRNA genes:669
Interacting mature miRNAs:775
Transcripts:ENST00000284523, ENST00000366753
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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system adipose tissue appendage entire extraembryonic component
High
Medium 1 5 5 5 2 3 2 13 171 2 1 1
Low 20 4 20 170 102 13 1346 5 15 48 470 493 161 1 697 1
Below cutoff 1222 1388 857 119 933 116 1597 1064 1720 246 712 594 8 566 1092 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000284523   ⟹   ENSP00000284523
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1228,006,998 - 228,061,271 (+)Ensembl
RefSeq Acc Id: NM_033131   ⟹   NP_149122
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381228,006,998 - 228,061,271 (+)NCBI
GRCh371228,194,723 - 228,248,972 (+)ENTREZGENE
GRCh371228,194,723 - 228,248,972 (+)NCBI
Build 361226,261,375 - 226,315,584 (+)NCBI Archive
HuRef1198,726,487 - 198,764,776 (+)ENTREZGENE
CHM1_11229,467,104 - 229,521,343 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011544319   ⟹   XP_011542621
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381228,007,022 - 228,067,113 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_149122   ⟸   NM_033131
- Peptide Label: precursor
- UniProtKB: P56704 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011542621   ⟸   XM_011544319
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSP00000284523   ⟸   ENST00000284523

Promoters
RGD ID:6859172
Promoter ID:EPDNEW_H2751
Type:initiation region
Name:WNT3A_1
Description:Wnt family member 3A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381228,006,998 - 228,007,058EPDNEW

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 1q32.3-44(chr1:214023812-248918469)x3 copy number gain See cases [RCV000050981] Chr1:214023812..248918469 [GRCh38]
Chr1:214197155..249212668 [GRCh37]
Chr1:212263778..247179291 [NCBI36]
Chr1:1q32.3-44
pathogenic
GRCh38/hg38 1q41-44(chr1:223347693-248918469)x3 copy number gain See cases [RCV000050581] Chr1:223347693..248918469 [GRCh38]
Chr1:223521035..249212668 [GRCh37]
Chr1:221587658..247179291 [NCBI36]
Chr1:1q41-44
pathogenic
GRCh38/hg38 1q41-44(chr1:221902539-248918469)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051875]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051875]|See cases [RCV000051875] Chr1:221902539..248918469 [GRCh38]
Chr1:222075881..249212668 [GRCh37]
Chr1:220142504..247179291 [NCBI36]
Chr1:1q41-44
pathogenic
GRCh38/hg38 1q41-44(chr1:223828500-248891309)x3 copy number gain See cases [RCV000051878] Chr1:223828500..248891309 [GRCh38]
Chr1:224016202..249185508 [GRCh37]
Chr1:222082825..247152131 [NCBI36]
Chr1:1q41-44
pathogenic
GRCh38/hg38 1q41-44(chr1:223887780-248891309)x3 copy number gain See cases [RCV000051880] Chr1:223887780..248891309 [GRCh38]
Chr1:224075482..249185508 [GRCh37]
Chr1:222142105..247152131 [NCBI36]
Chr1:1q41-44
pathogenic
GRCh38/hg38 1q42.11-44(chr1:224096488-248918469)x3 copy number gain See cases [RCV000051882] Chr1:224096488..248918469 [GRCh38]
Chr1:224284190..249212668 [GRCh37]
Chr1:222350813..247179291 [NCBI36]
Chr1:1q42.11-44
pathogenic
GRCh38/hg38 1q32.2-44(chr1:209646207-248931113)x3 copy number gain See cases [RCV000051861] Chr1:209646207..248931113 [GRCh38]
Chr1:209819552..249225312 [GRCh37]
Chr1:207886175..247191935 [NCBI36]
Chr1:1q32.2-44
pathogenic
GRCh38/hg38 1q41-42.13(chr1:221519280-228862141)x1 copy number loss Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053955]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053955]|See cases [RCV000053955] Chr1:221519280..228862141 [GRCh38]
Chr1:221692622..228997888 [GRCh37]
Chr1:219759245..227064511 [NCBI36]
Chr1:1q41-42.13
pathogenic
NM_033131.3(WNT3A):c.320G>A (p.Arg107Lys) single nucleotide variant Malignant melanoma [RCV000064558] Chr1:228050662 [GRCh38]
Chr1:228238363 [GRCh37]
Chr1:226304986 [NCBI36]
Chr1:1q42.13
not provided
GRCh38/hg38 1q32.2-44(chr1:209963625-248918469)x3 copy number gain See cases [RCV000134979] Chr1:209963625..248918469 [GRCh38]
Chr1:210136970..249212668 [GRCh37]
Chr1:208203593..247179291 [NCBI36]
Chr1:1q32.2-44
pathogenic
GRCh38/hg38 1q42.13(chr1:227613596-229249335)x4 copy number gain See cases [RCV000134940] Chr1:227613596..229249335 [GRCh38]
Chr1:227801297..229385082 [GRCh37]
Chr1:225867920..227451705 [NCBI36]
Chr1:1q42.13
likely pathogenic|uncertain significance
GRCh38/hg38 1q41-44(chr1:223815147-248918469)x3 copy number gain See cases [RCV000135839] Chr1:223815147..248918469 [GRCh38]
Chr1:224002849..249212668 [GRCh37]
Chr1:222069472..247179291 [NCBI36]
Chr1:1q41-44
pathogenic
GRCh38/hg38 1q42.12-42.2(chr1:226185124-232872488)x1 copy number loss See cases [RCV000135796] Chr1:226185124..232872488 [GRCh38]
Chr1:226372825..233008234 [GRCh37]
Chr1:224439448..231074857 [NCBI36]
Chr1:1q42.12-42.2
pathogenic
GRCh38/hg38 1q41-42.13(chr1:223347693-228556332)x1 copy number loss See cases [RCV000136636] Chr1:223347693..228556332 [GRCh38]
Chr1:223521035..228744033 [GRCh37]
Chr1:221587658..226810656 [NCBI36]
Chr1:1q41-42.13
pathogenic
GRCh38/hg38 1q42.11-44(chr1:224022862-248918469)x3 copy number gain See cases [RCV000137769] Chr1:224022862..248918469 [GRCh38]
Chr1:224210564..249212668 [GRCh37]
Chr1:222277187..247179291 [NCBI36]
Chr1:1q42.11-44
pathogenic
GRCh38/hg38 1q42.12-44(chr1:225438480-248787200)x3 copy number gain See cases [RCV000142448] Chr1:225438480..248787200 [GRCh38]
Chr1:225626182..249060210 [GRCh37]
Chr1:223692805..247048022 [NCBI36]
Chr1:1q42.12-44
pathogenic
GRCh38/hg38 1q42.12-42.13(chr1:225382172-230418801)x1 copy number loss See cases [RCV000143223] Chr1:225382172..230418801 [GRCh38]
Chr1:225569874..230554547 [GRCh37]
Chr1:223636497..228621170 [NCBI36]
Chr1:1q42.12-42.13
pathogenic
GRCh38/hg38 1q32.2-44(chr1:207346642-248930485)x3 copy number gain See cases [RCV000143727] Chr1:207346642..248930485 [GRCh38]
Chr1:207519987..249224684 [GRCh37]
Chr1:205586610..247191307 [NCBI36]
Chr1:1q32.2-44
pathogenic
GRCh37/hg19 1q31.3-42.13(chr1:197811907-228997888)x3 copy number gain See cases [RCV000240137] Chr1:197811907..228997888 [GRCh37]
Chr1:1q31.3-42.13
pathogenic
GRCh37/hg19 1q42.12-42.13(chr1:226871745-229906954)x1 copy number loss See cases [RCV000240001] Chr1:226871745..229906954 [GRCh37]
Chr1:1q42.12-42.13
uncertain significance
GRCh37/hg19 1q31.3-44(chr1:195483439-249213000)x3 copy number gain See cases [RCV000449172] Chr1:195483439..249213000 [GRCh37]
Chr1:1q31.3-44
pathogenic
GRCh37/hg19 1q41-44(chr1:214697099-249224684)x3 copy number gain See cases [RCV000449210] Chr1:214697099..249224684 [GRCh37]
Chr1:1q41-44
pathogenic
GRCh37/hg19 1p36.33-q44(chr1:849467-249224684)x3 copy number gain See cases [RCV000510383] Chr1:849467..249224684 [GRCh37]
Chr1:1p36.33-q44
pathogenic
GRCh37/hg19 1p36.33-q44(chr1:849467-249224684) copy number gain See cases [RCV000510926] Chr1:849467..249224684 [GRCh37]
Chr1:1p36.33-q44
pathogenic
GRCh37/hg19 1q42.11-44(chr1:224105294-249224684)x3 copy number gain See cases [RCV000510981] Chr1:224105294..249224684 [GRCh37]
Chr1:1q42.11-44
pathogenic
GRCh37/hg19 1q42.13(chr1:227774916-228335196)x3 copy number gain See cases [RCV000511279] Chr1:227774916..228335196 [GRCh37]
Chr1:1q42.13
uncertain significance
GRCh37/hg19 1q41-44(chr1:218252551-249224684)x3 copy number gain not provided [RCV000684700] Chr1:218252551..249224684 [GRCh37]
Chr1:1q41-44
pathogenic
GRCh37/hg19 1q42.13(chr1:227696109-229152386)x3 copy number gain not provided [RCV000684706] Chr1:227696109..229152386 [GRCh37]
Chr1:1q42.13
likely pathogenic
GRCh37/hg19 1p36.33-q44(chr1:47851-249228449)x3 copy number gain not provided [RCV000736295] Chr1:47851..249228449 [GRCh37]
Chr1:1p36.33-q44
pathogenic
GRCh37/hg19 1p36.33-q44(chr1:82154-249218992)x3 copy number gain not provided [RCV000736305] Chr1:82154..249218992 [GRCh37]
Chr1:1p36.33-q44
pathogenic
GRCh37/hg19 1q42.13(chr1:228297613-228703236) copy number gain Aortic valve disease 1 [RCV000770940] Chr1:228297613..228703236 [GRCh37]
Chr1:1q42.13
uncertain significance
NM_033131.4(WNT3A):c.852C>T (p.Asn284=) single nucleotide variant not provided [RCV000929622] Chr1:228059258 [GRCh38]
Chr1:228246959 [GRCh37]
Chr1:1q42.13
likely benign
NM_033131.4(WNT3A):c.400G>A (p.Ala134Thr) single nucleotide variant not provided [RCV000880386] Chr1:228050742 [GRCh38]
Chr1:228238443 [GRCh37]
Chr1:1q42.13
benign
GRCh37/hg19 1q42.13(chr1:228235107-228983659)x3 copy number gain not provided [RCV000848102] Chr1:228235107..228983659 [GRCh37]
Chr1:1q42.13
uncertain significance
GRCh37/hg19 1q42.13(chr1:227772973-228326173)x3 copy number gain not provided [RCV000847140] Chr1:227772973..228326173 [GRCh37]
Chr1:1q42.13
uncertain significance
GRCh37/hg19 1q25.3-44(chr1:182388773-249111240)x3 copy number gain not provided [RCV000845852] Chr1:182388773..249111240 [GRCh37]
Chr1:1q25.3-44
pathogenic
GRCh37/hg19 1q41-43(chr1:219916966-239004378)x3 copy number gain not provided [RCV001005175] Chr1:219916966..239004378 [GRCh37]
Chr1:1q41-43
pathogenic
NM_033131.4(WNT3A):c.564C>T (p.Asn188=) single nucleotide variant not provided [RCV000898719] Chr1:228050906 [GRCh38]
Chr1:228238607 [GRCh37]
Chr1:1q42.13
likely benign
NM_033131.4(WNT3A):c.936C>T (p.Cys312=) single nucleotide variant not provided [RCV000895899] Chr1:228059342 [GRCh38]
Chr1:228247043 [GRCh37]
Chr1:1q42.13
benign
NM_033131.4(WNT3A):c.513C>T (p.Asp171=) single nucleotide variant not provided [RCV000933280] Chr1:228050855 [GRCh38]
Chr1:228238556 [GRCh37]
Chr1:1q42.13
benign
GRCh37/hg19 1q41-42.2(chr1:223653722-234591807)x1 copy number loss not provided [RCV001005180] Chr1:223653722..234591807 [GRCh37]
Chr1:1q41-42.2
pathogenic
GRCh37/hg19 1q32.2-44(chr1:210152794-249218992)x3 copy number gain See cases [RCV001194578] Chr1:210152794..249218992 [GRCh37]
Chr1:1q32.2-44
pathogenic
GRCh37/hg19 1q32.1-44(chr1:204045948-249218992)x3 copy number gain See cases [RCV001007407] Chr1:204045948..249218992 [GRCh37]
Chr1:1q32.1-44
pathogenic
NC_000001.10:g.(?_130980840)_(248900000_?)dup duplication Gastrointestinal stromal tumor [RCV001300221]|Parathyroid carcinoma [RCV001341077] Chr1:130980840..248900000 [GRCh37]
Chr1:1q12-44
uncertain significance

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:15983 AgrOrtholog
COSMIC WNT3A COSMIC
Ensembl Genes ENSG00000154342 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSP00000284523 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENST00000284523 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.2460.20 UniProtKB/Swiss-Prot
GTEx ENSG00000154342 GTEx
HGNC ID HGNC:15983 ENTREZGENE
Human Proteome Map WNT3A Human Proteome Map
InterPro Wnt UniProtKB/Swiss-Prot
  Wnt3 UniProtKB/Swiss-Prot
  Wnt_C UniProtKB/Swiss-Prot
  Wnt_CS UniProtKB/Swiss-Prot
KEGG Report hsa:89780 UniProtKB/Swiss-Prot
NCBI Gene 89780 ENTREZGENE
OMIM 606359 OMIM
PANTHER PTHR12027 UniProtKB/Swiss-Prot
Pfam wnt UniProtKB/Swiss-Prot
PharmGKB PA38074 PharmGKB
PRINTS WNT3PROTEIN UniProtKB/Swiss-Prot
  WNTPROTEIN UniProtKB/Swiss-Prot
PROSITE WNT1 UniProtKB/Swiss-Prot
SMART WNT1 UniProtKB/Swiss-Prot
UniProt P56704 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q3SY79 UniProtKB/Swiss-Prot
  Q3SY80 UniProtKB/Swiss-Prot
  Q969P2 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-28 WNT3A  Wnt family member 3A  WNT3A  wingless-type MMTV integration site family member 3A  Symbol and/or name change 5135510 APPROVED
2015-11-24 WNT3A  wingless-type MMTV integration site family member 3A  WNT3A  wingless-type MMTV integration site family, member 3A  Symbol and/or name change 5135510 APPROVED