Vwa1 (von Willebrand factor A domain containing 1) - Rat Genome Database

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Gene: Vwa1 (von Willebrand factor A domain containing 1) Rattus norvegicus
Analyze
Symbol: Vwa1
Name: von Willebrand factor A domain containing 1
RGD ID: 1311476
Description: Predicted to enable microfibril binding activity and protein homodimerization activity. Predicted to act upstream of or within behavioral response to pain; extracellular matrix organization; and protein homooligomerization. Predicted to be located in basement membrane; extracellular region; and interstitial matrix. Predicted to be active in collagen-containing extracellular matrix. Human ortholog(s) of this gene implicated in autosomal recessive distal hereditary motor neuronopathy 7. Orthologous to human VWA1 (von Willebrand factor A domain containing 1); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC298683; RGD1311476; similar to von Willebrand factor A-domain containing 1; von Willebrand factor A domain-containing protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85171,659,694 - 171,664,880 (-)NCBIGRCr8
mRatBN7.25166,377,451 - 166,382,784 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5166,377,455 - 166,382,637 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5169,082,235 - 169,087,422 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05170,903,660 - 170,908,847 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05170,866,199 - 170,871,386 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05173,216,737 - 173,221,923 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,216,741 - 173,222,440 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05176,692,349 - 176,697,535 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45172,626,372 - 172,631,591 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15172,636,870 - 172,642,086 (-)NCBI
Celera5164,578,200 - 164,583,386 (-)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:12062410   PMID:16407285   PMID:16502470   PMID:18314316   PMID:18757743   PMID:19199708   PMID:19279005   PMID:23376485   PMID:23533145   PMID:27068509  


Genomics

Comparative Map Data
Vwa1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85171,659,694 - 171,664,880 (-)NCBIGRCr8
mRatBN7.25166,377,451 - 166,382,784 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5166,377,455 - 166,382,637 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5169,082,235 - 169,087,422 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05170,903,660 - 170,908,847 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05170,866,199 - 170,871,386 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05173,216,737 - 173,221,923 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,216,741 - 173,222,440 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05176,692,349 - 176,697,535 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45172,626,372 - 172,631,591 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15172,636,870 - 172,642,086 (-)NCBI
Celera5164,578,200 - 164,583,386 (-)NCBICelera
Cytogenetic Map5q36NCBI
VWA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811,435,690 - 1,442,882 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11,434,861 - 1,442,882 (+)EnsemblGRCh38hg38GRCh38
GRCh3711,371,070 - 1,378,262 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611,360,772 - 1,366,009 (+)NCBINCBI36Build 36hg18NCBI36
Celera11,201,090 - 1,208,450 (-)NCBICelera
Cytogenetic Map1p36.33NCBI
HuRef1644,711 - 652,000 (+)NCBIHuRef
CHM1_111,358,164 - 1,365,523 (+)NCBICHM1_1
T2T-CHM13v2.01870,050 - 877,242 (+)NCBIT2T-CHM13v2.0
Vwa1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394155,852,952 - 155,859,042 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4155,852,606 - 155,859,155 (-)EnsemblGRCm39 Ensembl
GRCm384155,768,495 - 155,774,693 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4155,768,149 - 155,774,698 (-)EnsemblGRCm38mm10GRCm38
MGSCv374155,142,604 - 155,148,670 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364154,612,295 - 154,618,314 (-)NCBIMGSCv36mm8
Celera4158,040,276 - 158,046,381 (-)NCBICelera
Cytogenetic Map4E2NCBI
cM Map487.31NCBI
Vwa1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554869,366,796 - 9,369,115 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554869,365,920 - 9,369,117 (-)NCBIChiLan1.0ChiLan1.0
VWA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21226,783,467 - 226,788,600 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11225,481,635 - 225,486,740 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01192,970 - 198,099 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111,394,396 - 1,397,938 (+)NCBIpanpan1.1PanPan1.1panPan2
VWA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1556,578,256 - 56,583,552 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl556,578,297 - 56,582,502 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha556,654,365 - 56,659,659 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0556,780,792 - 56,786,086 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl556,780,831 - 56,787,858 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1556,771,007 - 56,776,301 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0556,663,265 - 56,668,559 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0557,053,616 - 57,058,911 (+)NCBIUU_Cfam_GSD_1.0
Vwa1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505827,727,704 - 27,732,113 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367371,733,854 - 1,738,792 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367371,733,837 - 1,738,861 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VWA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl663,694,979 - 63,700,287 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1663,695,195 - 63,700,296 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2658,299,039 - 58,304,134 (+)NCBISscrofa10.2Sscrofa10.2susScr3
VWA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120130,016,802 - 130,023,138 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20130,014,754 - 130,021,822 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605434,557,942 - 34,563,225 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vwa1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248188,204,749 - 8,208,358 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248188,204,223 - 8,208,398 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Vwa1
39 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:419
Count of miRNA genes:237
Interacting mature miRNAs:281
Transcripts:ENSRNOT00000024897
Prediction methods:Microtar, 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
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5151113452166875058Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5154828214166875058Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000024897   ⟹   ENSRNOP00000024897
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5166,377,455 - 166,382,637 (-)Ensembl
Rnor_6.0 Ensembl5173,216,741 - 173,222,440 (-)Ensembl
RefSeq Acc Id: NM_001013938   ⟹   NP_001013960
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85171,659,694 - 171,664,880 (-)NCBI
mRatBN7.25166,377,451 - 166,382,637 (-)NCBI
Rnor_6.05173,216,737 - 173,221,923 (-)NCBI
Rnor_5.05176,692,349 - 176,697,535 (-)NCBI
RGSC_v3.45172,626,372 - 172,631,591 (-)RGD
Celera5164,578,200 - 164,583,386 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001013960 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH81983 (Get FASTA)   NCBI Sequence Viewer  
  EDL81323 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000024897.6
  ENSRNOP00055021827
  ENSRNOP00060005636
  ENSRNOP00065012438
GenBank Protein Q642A6 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001013960   ⟸   NM_001013938
- Peptide Label: precursor
- UniProtKB: Q642A6 (UniProtKB/Swiss-Prot),   A6IUS2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000024897   ⟸   ENSRNOT00000024897
Protein Domains
Fibronectin type-III   VWFA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q642A6-F1-model_v2 AlphaFold Q642A6 1-415 view protein structure

Transcriptome

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

Promoters
RGD ID:13694329
Promoter ID:EPDNEW_R4854
Type:initiation region
Name:Vwa1_1
Description:von Willebrand factor A domain containing 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05173,221,888 - 173,221,948EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311476 AgrOrtholog
BioCyc Gene G2FUF-38900 BioCyc
Ensembl Genes ENSRNOG00000018338 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00055015892 UniProtKB/Swiss-Prot
  ENSRNOG00060004439 UniProtKB/Swiss-Prot
  ENSRNOG00065010162 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000024897.8 UniProtKB/Swiss-Prot
  ENSRNOT00055027031 UniProtKB/Swiss-Prot
  ENSRNOT00060007441 UniProtKB/Swiss-Prot
  ENSRNOT00065016381 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot
  3.40.50.410 UniProtKB/Swiss-Prot
  Immunoglobulins UniProtKB/TrEMBL
  von Willebrand factor, type A domain UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7128587 IMAGE-MGC_LOAD
InterPro ECM_Assembly_Org UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FN3_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FN3_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VWF_A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:298683 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:94170 IMAGE-MGC_LOAD
NCBI Gene 298683 ENTREZGENE
PANTHER COLLAGEN ALPHA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VON WILLEBRAND FACTOR A DOMAIN-CONTAINING PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam fn3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VWA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Vwa1 PhenoGen
PRINTS VWFADOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE FN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VWFA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000018338 RatGTEx
  ENSRNOG00055015892 RatGTEx
  ENSRNOG00060004439 RatGTEx
  ENSRNOG00065010162 RatGTEx
SMART FN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VWA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Fibronectin type III UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
  SSF53300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6IUS2 ENTREZGENE, UniProtKB/TrEMBL
  Q642A6 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Vwa1  von Willebrand factor A domain containing 1  RGD1311476  similar to von Willebrand factor A-domain containing 1  Symbol and Name updated 1299863 APPROVED
2005-12-06 RGD1311476  similar to von Willebrand factor A-domain containing 1  RGD1311476_predicted  similar to von Willebrand factor A-domain containing 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1311476_predicted  similar to von Willebrand factor A-domain containing 1 (predicted)  LOC298683_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC298683_predicted  similar to von Willebrand factor A-domain containing 1 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL