Vwa2 (von Willebrand factor A domain containing 2) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Vwa2 (von Willebrand factor A domain containing 2) Rattus norvegicus
Analyze
Symbol: Vwa2
Name: von Willebrand factor A domain containing 2
RGD ID: 1562000
Description: Predicted to enable identical protein binding activity. Predicted to be involved in calcium-independent cell-matrix adhesion and regulation of insulin receptor signaling pathway. Predicted to be located in extracellular region. Predicted to be active in basement membrane and extracellular space. Orthologous to human VWA2 (von Willebrand factor A domain containing 2); INTERACTS WITH bisphenol A; paracetamol; 1,1-dichloroethene (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC307988; RGD1562000; similar to AMACO; von Willebrand factor A domain containing 2, pseudogene 1; von Willebrand factor A domain-containing protein 2; Vwa2-ps1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21255,922,263 - 255,963,920 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1255,923,541 - 255,963,934 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01277,689,478 - 277,730,407 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1277,689,729 - 277,730,389 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01285,069,617 - 285,110,373 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41263,185,213 - 263,217,657 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1251,620,546 - 251,660,952 (+)NCBICelera
Cytogenetic Map1q55NCBI
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

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:14506275   PMID:15699509   PMID:19199708   PMID:19651211  


Genomics

Comparative Map Data
Vwa2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21255,922,263 - 255,963,920 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1255,923,541 - 255,963,934 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01277,689,478 - 277,730,407 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1277,689,729 - 277,730,389 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01285,069,617 - 285,110,373 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41263,185,213 - 263,217,657 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1251,620,546 - 251,660,952 (+)NCBICelera
Cytogenetic Map1q55NCBI
VWA2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3810114,239,254 - 114,294,500 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl10114,239,254 - 114,294,489 (+)EnsemblGRCh38hg38GRCh38
GRCh3710115,999,013 - 116,054,259 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3610115,989,008 - 116,039,741 (+)NCBINCBI36Build 36hg18NCBI36
Celera10109,728,184 - 109,778,935 (+)NCBICelera
Cytogenetic Map10q25.3NCBI
HuRef10109,626,098 - 109,681,821 (+)NCBIHuRef
CHM1_110116,282,927 - 116,338,106 (+)NCBICHM1_1
T2T-CHM13v2.010115,132,880 - 115,188,608 (+)NCBIT2T-CHM13v2.0
Vwa2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391956,862,848 - 56,900,510 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1956,862,681 - 56,900,510 (+)EnsemblGRCm39 Ensembl
GRCm381956,874,416 - 56,912,078 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1956,874,249 - 56,912,078 (+)EnsemblGRCm38mm10GRCm38
MGSCv371956,948,906 - 56,986,568 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361956,927,666 - 56,965,328 (+)NCBIMGSCv36mm8
Celera1959,062,997 - 59,103,072 (+)NCBICelera
Cytogenetic Map19D2NCBI
Vwa2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543119,232,562 - 19,272,205 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543119,224,373 - 19,274,475 (+)NCBIChiLan1.0ChiLan1.0
VWA2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.110114,270,107 - 114,321,422 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl10114,285,212 - 114,321,148 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v010110,838,155 - 110,894,961 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
VWA2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12825,089,499 - 25,136,879 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2825,089,499 - 25,136,893 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2825,240,680 - 25,288,027 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02825,623,096 - 25,670,327 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2825,623,217 - 25,668,188 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12825,178,374 - 25,225,677 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02825,193,402 - 25,240,760 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02825,387,118 - 25,434,470 (+)NCBIUU_Cfam_GSD_1.0
Vwa2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721320,955,084 - 20,994,096 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364864,576,631 - 4,603,708 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049364864,567,642 - 4,604,429 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VWA2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14124,580,295 - 124,628,791 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114124,577,420 - 124,631,760 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214135,702,461 - 135,748,896 (+)NCBISscrofa10.2Sscrofa10.2susScr3
VWA2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.19107,112,498 - 107,166,568 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl9107,122,752 - 107,161,202 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604868,345,162 - 68,396,765 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vwa2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473732,300,029 - 32,334,379 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473732,292,279 - 32,340,921 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Vwa2
248 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:46
Count of miRNA genes:41
Interacting mature miRNAs:46
Transcripts:ENSRNOT00000051834
Prediction methods:Miranda, Rnahybrid, Targetscan
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1176426412257976495Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1177227632256448636Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1177227632256448636Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1179567751260522016Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1195804352257091168Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1199050459259647894Rat
1358890Bp259Blood pressure QTL 2593.06arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1210702053260522016Rat
734768Niddm59Non-insulin dependent diabetes mellitus QTL 59body mass (VT:0001259)body weight (CMO:0000012)1213843987258843987Rat
70211Niddm24Non-insulin dependent diabetes mellitus QTL 243.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1214647894259647894Rat
1549910Bw54Body weight QTL 540.05body mass (VT:0001259)body weight (CMO:0000012)1214647894259647894Rat
61327Eae7Experimental allergic encephalomyelitis QTL 75.6body mass (VT:0001259)change in body weight (CMO:0002045)1216255568260522016Rat
2302040Pia35Pristane induced arthritis QTL 353.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1216255568260522016Rat
1598821Rf55Renal function QTL 556.3renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1218748008257976495Rat
724533Rf51Renal function QTL 515.30.0002kidney plasma flow trait (VT:0005524)renal plasma flow (CMO:0001914)1218753816256448513Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1221264111259647894Rat
10053715Scort24Serum corticosterone level QTL 242.130.0088blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1221414816260522016Rat
724552Glom2Glomerulus QTL 23.30.0001kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)1222363780260522016Rat
1600392Bw123Body weight QTL 1230.001body mass (VT:0001259)body weight (CMO:0000012)1223201027260522016Rat
734767Niddm57Non-insulin dependent diabetes mellitus QTL 57body mass (VT:0001259)body weight (CMO:0000012)1224054293260122809Rat
631843Bw116Body weight QTL 1164.10.016abdominal adipose amount (VT:1000220)abdominal fat pad weight (CMO:0000088)1224054293260122809Rat
734769Niddm58Non-insulin dependent diabetes mellitus QTL 58body mass (VT:0001259)body weight (CMO:0000012)1224569538260122809Rat
631215Stl8Serum triglyceride level QTL 89.270.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1225126575260522016Rat
1300108Rf8Renal function QTL 83.75renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1228581588259647894Rat
1581544Rf52Renal function QTL 520.05urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)1232156370259647894Rat
631669Iddm9Insulin dependent diabetes mellitus QTL 92.80.039blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1233190394258625266Rat
631536Lnnr2Liver neoplastic nodule remodeling QTL 22.90.0005liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)1233948574260522016Rat
631690Scl5Serum cholesterol level QTL 52.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1236125214260522016Rat
631836Stl31Serum triglyceride level QTL 314.640.00000487blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1237147813260522016Rat
631837Niddm35Non-insulin dependent diabetes mellitus QTL 350.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1238699859259647894Rat
1598839Rf56Renal function QTL 56renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1245907761257976495Rat


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 appendage
High
Medium 26 18
Low 3 10 9 6 4 6 57 9 23 11
Below cutoff 31 32 25 15 25 4 5 17 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000051834   ⟹   ENSRNOP00000047286
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1255,923,541 - 255,963,934 (+)Ensembl
Rnor_6.0 Ensembl1277,689,729 - 277,730,389 (+)Ensembl
RefSeq Acc Id: XM_003749146   ⟹   XP_003749194
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21255,922,263 - 255,963,920 (+)NCBI
Rnor_6.01277,689,478 - 277,730,407 (+)NCBI
Rnor_5.01285,069,617 - 285,110,373 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003749194 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_003749194   ⟸   XM_003749146
- UniProtKB: D4A0J4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000047286   ⟸   ENSRNOT00000051834
Protein Domains
EGF-like   VWFA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A0J4-F1-model_v2 AlphaFold D4A0J4 1-792 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562000 AgrOrtholog
BioCyc Gene G2FUF-55304 BioCyc
Ensembl Genes ENSRNOG00000025581 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000047286 ENTREZGENE
  ENSRNOP00000047286.5 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051834 ENTREZGENE
  ENSRNOT00000051834.6 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.410 UniProtKB/TrEMBL
InterPro EGF-like_Ca-bd_dom UniProtKB/TrEMBL
  EGF-like_CS UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  VWA2 UniProtKB/TrEMBL
  VWF_A UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
KEGG Report rno:307988 UniProtKB/TrEMBL
NCBI Gene 307988 ENTREZGENE
PANTHER PTHR24020:SF37 UniProtKB/TrEMBL
Pfam EGF UniProtKB/TrEMBL
  hEGF UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
PhenoGen Vwa2 PhenoGen
PROSITE EGF_1 UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  VWFA UniProtKB/TrEMBL
SMART EGF UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
Superfamily-SCOP SSF53300 UniProtKB/TrEMBL
UniProt D4A0J4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-07 Vwa2  von Willebrand factor A domain containing 2  Vwa2-ps1  von Willebrand factor A domain containing 2, pseudogene 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-06-09 Vwa2-ps1  von Willebrand factor A domain containing 2, pseudogene 1  Vwa2  von Willebrand factor A domain containing 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Vwa2  von Willebrand factor A domain containing 2   Vwa2_predicted  von Willebrand factor A domain containing 2 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Vwa2_predicted  von Willebrand factor A domain containing 2 (predicted)  RGD1562000_predicted  similar to AMACO (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1562000_predicted  similar to AMACO (predicted)  LOC307988  similar to AMACO  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC307988  similar to AMACO      Symbol and Name status set to provisional 70820 PROVISIONAL