Wfdc1 (WAP four-disulfide core domain 1) - Rat Genome Database

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Gene: Wfdc1 (WAP four-disulfide core domain 1) Rattus norvegicus
Analyze
Symbol: Wfdc1
Name: WAP four-disulfide core domain 1
RGD ID: 68938
Description: Predicted to enable serine-type endopeptidase inhibitor activity. Involved in several processes, including negative regulation of epithelial cell proliferation; regulation of cell growth; and response to estradiol. Located in extracellular space. Orthologous to human WFDC1 (WAP four-disulfide core domain 1); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,7-dihydropurine-6-thione.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 20-kDa prostate stromal protein; prostate stromal protein ps20; ps20; ps20 growth inhibitor; WAP four-disulfide core domain protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81964,628,689 - 64,647,739 (+)NCBIGRCr8
mRatBN7.21947,720,191 - 47,739,121 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1947,720,423 - 47,739,108 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1954,514,762 - 54,533,453 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01955,195,467 - 55,214,186 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01957,408,721 - 57,427,398 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01952,313,771 - 52,332,721 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1952,313,795 - 52,332,697 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01963,061,860 - 63,080,795 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41949,924,440 - 49,943,113 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11949,929,319 - 49,947,994 (+)NCBI
Celera1946,978,401 - 46,997,044 (+)NCBICelera
Cytogenetic Map19q12NCBI
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

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 GOA human gene data--August 2006 GOA data from the GO Consortium
3. Suppression of ps20 expression in the rat uterus by tamoxifen and estrogens. Hung H Endocrinology. 2005 May;146(5):2388-96. Epub 2005 Jan 27.
4. Molecular cloning and expression of ps20 growth inhibitor. A novel WAP-type "four-disulfide core" domain protein expressed in smooth muscle. Larsen M, etal., J Biol Chem 1998 Feb 20;273(8):4574-84.
5. Decreased stromal expression and increased epithelial expression of WFDC1/ps20 in prostate cancer is associated with reduced recurrence-free survival. McAlhany SJ, etal., Prostate. 2004 Oct 1;61(2):182-91.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. GOA pipeline RGD automated data pipeline
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Comprehensive gene review and curation RGD comprehensive gene curation
11. Purification of a novel protein (ps20) from urogenital sinus mesenchymal cells with growth inhibitory properties in vitro. Rowley DR, etal., J Biol Chem. 1995 Sep 15;270(37):22058-65.
12. 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.
13. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
14. Molecular analysis of WFDC1/ps20 gene in prostate cancer. Watson JE, etal., Prostate. 2004 Oct 1;61(2):192-9.
Additional References at PubMed
PMID:15489334   PMID:25219356  


Genomics

Comparative Map Data
Wfdc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81964,628,689 - 64,647,739 (+)NCBIGRCr8
mRatBN7.21947,720,191 - 47,739,121 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1947,720,423 - 47,739,108 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1954,514,762 - 54,533,453 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01955,195,467 - 55,214,186 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01957,408,721 - 57,427,398 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01952,313,771 - 52,332,721 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1952,313,795 - 52,332,697 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01963,061,860 - 63,080,795 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41949,924,440 - 49,943,113 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11949,929,319 - 49,947,994 (+)NCBI
Celera1946,978,401 - 46,997,044 (+)NCBICelera
Cytogenetic Map19q12NCBI
WFDC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381684,294,878 - 84,329,844 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1684,294,846 - 84,329,844 (+)EnsemblGRCh38hg38GRCh38
GRCh371684,328,484 - 84,363,450 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361682,885,902 - 82,920,951 (+)NCBINCBI36Build 36hg18NCBI36
Build 341682,885,901 - 82,920,950NCBI
Celera1668,630,194 - 68,665,222 (+)NCBICelera
Cytogenetic Map16q24.1NCBI
HuRef1670,082,125 - 70,116,484 (+)NCBIHuRef
CHM1_11685,739,741 - 85,774,785 (+)NCBICHM1_1
T2T-CHM13v2.01690,352,943 - 90,396,238 (+)NCBIT2T-CHM13v2.0
Wfdc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398120,393,104 - 120,414,759 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8120,393,104 - 120,414,961 (+)EnsemblGRCm39 Ensembl
GRCm388119,666,365 - 119,688,020 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8119,666,365 - 119,688,222 (+)EnsemblGRCm38mm10GRCm38
MGSCv378122,190,265 - 122,211,920 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368122,552,342 - 122,573,997 (+)NCBIMGSCv36mm8
Celera8123,883,441 - 123,905,242 (+)NCBICelera
Cytogenetic Map8E1NCBI
cM Map868.15NCBI
Wfdc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495556422,536 - 38,091 (-)NCBIChiLan1.0ChiLan1.0
WFDC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21894,032,071 - 94,075,948 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11699,949,260 - 99,993,217 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01664,958,920 - 64,994,314 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11684,300,848 - 84,336,328 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1684,301,168 - 84,333,432 (+)Ensemblpanpan1.1panPan2
WFDC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1568,067,894 - 68,095,749 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl568,067,885 - 68,096,067 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha568,082,387 - 68,110,327 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0568,301,053 - 68,328,998 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl568,301,057 - 68,329,541 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1568,313,918 - 68,341,842 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0568,150,395 - 68,178,327 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0568,565,748 - 68,593,720 (-)NCBIUU_Cfam_GSD_1.0
WFDC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl64,333,731 - 4,399,237 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.164,333,729 - 4,365,122 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.264,757,938 - 4,789,333 (-)NCBISscrofa10.2Sscrofa10.2susScr3
WFDC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1569,700,984 - 69,734,682 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl569,701,470 - 69,731,823 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660476,025,869 - 6,054,483 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Wfdc1
53 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:246
Count of miRNA genes:153
Interacting mature miRNAs:173
Transcripts:ENSRNOT00000021630
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
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat


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 2 25 7 5 5 6 9 37 6 29 11 6
Low 1 18 50 36 19 36 2 2 33 29 12 2
Below cutoff 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000021630   ⟹   ENSRNOP00000021630
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1947,720,423 - 47,739,099 (+)Ensembl
Rnor_6.0 Ensembl1952,313,795 - 52,332,697 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000117897   ⟹   ENSRNOP00000095202
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1947,720,429 - 47,739,108 (+)Ensembl
RefSeq Acc Id: NM_133581   ⟹   NP_598265
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81964,629,048 - 64,647,739 (+)NCBI
mRatBN7.21947,720,428 - 47,739,121 (+)NCBI
Rnor_6.01952,314,030 - 52,332,721 (+)NCBI
Rnor_5.01963,061,860 - 63,080,795 (+)NCBI
RGSC_v3.41949,924,440 - 49,943,113 (+)RGD
Celera1946,978,401 - 46,997,044 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006255705   ⟹   XP_006255767
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81964,628,689 - 64,647,717 (+)NCBI
mRatBN7.21947,720,191 - 47,739,099 (+)NCBI
Rnor_6.01952,313,771 - 52,332,718 (+)NCBI
Rnor_5.01963,061,860 - 63,080,795 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_598265   ⟸   NM_133581
- Peptide Label: precursor
- UniProtKB: O70280 (UniProtKB/Swiss-Prot),   A6IZK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006255767   ⟸   XM_006255705
- Peptide Label: isoform X1
- UniProtKB: O70280 (UniProtKB/Swiss-Prot),   A6IZK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000021630   ⟸   ENSRNOT00000021630
RefSeq Acc Id: ENSRNOP00000095202   ⟸   ENSRNOT00000117897
Protein Domains
WAP

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O70280-F1-model_v2 AlphaFold O70280 1-212 view protein structure

Transcriptome

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

Promoters
RGD ID:13701184
Promoter ID:EPDNEW_R11706
Type:initiation region
Name:Wfdc1_2
Description:WAP four-disulfide core domain 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11707  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01952,313,792 - 52,313,852EPDNEW
RGD ID:13701185
Promoter ID:EPDNEW_R11707
Type:initiation region
Name:Wfdc1_1
Description:WAP four-disulfide core domain 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11706  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01952,314,039 - 52,314,099EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:68938 AgrOrtholog
BioCyc Gene G2FUF-5508 BioCyc
Ensembl Genes ENSRNOG00000015904 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00055021439 UniProtKB/Swiss-Prot
  ENSRNOG00060016072 UniProtKB/Swiss-Prot
  ENSRNOG00065006735 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000021630.5 UniProtKB/TrEMBL
  ENSRNOT00000117897.1 UniProtKB/TrEMBL
  ENSRNOT00055036640 UniProtKB/Swiss-Prot
  ENSRNOT00060027530 UniProtKB/Swiss-Prot
  ENSRNOT00065010468 UniProtKB/Swiss-Prot
Gene3D-CATH 4.10.75.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6887007 IMAGE-MGC_LOAD
InterPro Elafin-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WAP_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WFDC1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:171112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72704 IMAGE-MGC_LOAD
NCBI Gene 171112 ENTREZGENE
PANTHER PTHR14308 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WAP FOUR-DISULFIDE CORE DOMAIN PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam WAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Wfdc1 PhenoGen
PROSITE WAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000015904 RatGTEx
  ENSRNOG00055021439 RatGTEx
  ENSRNOG00060016072 RatGTEx
  ENSRNOG00065006735 RatGTEx
SMART WAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57256 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC205946
UniProt A0A8I6AT21_RAT UniProtKB/TrEMBL
  A0A8L2QBA2_RAT UniProtKB/TrEMBL
  A6IZK1 ENTREZGENE, UniProtKB/TrEMBL
  A6IZK3_RAT UniProtKB/TrEMBL
  O70280 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Wfdc1  WAP four-disulfide core domain 1    wap four-disulfide core domain 1  Symbol and Name status set to approved 625702 APPROVED
2002-06-10 Wfdc1  wap four-disulfide core domain 1      Symbol and Name updated 70585 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in smooth muscle and prostate gland stroma 61500
gene_function may be a protease inhibitor 61500
gene_process functions as a growth inhibitor 61500
gene_protein predicted 186 amino acids 61500