Stfa3 (stefin A3) - Rat Genome Database

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Gene: Stfa3 (stefin A3) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Stfa3
Name: stefin A3
RGD ID: 1307831
Description: Predicted to enable cysteine-type endopeptidase inhibitor activity and protease binding activity. Predicted to be involved in cell-cell adhesion; keratinocyte differentiation; and negative regulation of proteolysis. Predicted to be located in cornified envelope; cytoplasm; and extracellular space. Predicted to be part of peptidase inhibitor complex. Human ortholog(s) of this gene implicated in peeling skin syndrome 4. Orthologous to human CSTA (cystatin A); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Csta; cystatin-A; cystatin-alpha; epidermal stefin; epidermal thiol proteinase inhibitor; LOC288075
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81177,859,070 - 77,864,212 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1177,850,936 - 77,864,212 (+)EnsemblGRCr8
mRatBN7.21164,353,722 - 64,358,864 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1164,353,720 - 64,358,862 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1173,174,933 - 73,180,101 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01165,837,165 - 65,842,333 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01164,868,467 - 64,873,635 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01167,309,046 - 67,314,181 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1167,308,943 - 67,314,172 (+)Ensemblrn6Rnor6.0
Rnor_5.01170,398,922 - 70,403,785 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41166,030,827 - 66,035,282 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1163,823,743 - 63,828,712 (+)NCBICelera
RGSC_v3.11166,088,413 - 66,092,864 (-)NCBI
Cytogenetic Map11q22NCBI
JBrowse:




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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Linkage between phosphorylated cystatin alpha and filaggrin by epidermal transglutaminase as a model of cornified envelope and inhibition of cathepsin L activity by cornified envelope and the conjugated cystatin alpha. Takahashi M, etal., FEBS Lett. 1994 Mar 7;340(3):173-6. doi: 10.1016/0014-5793(94)80131-2.
Additional References at PubMed
PMID:2205237   PMID:6732797  


Genomics

Variants

.
Variants in Stfa3
67 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:16
Count of miRNA genes:16
Interacting mature miRNAs:16
Transcripts:ENSRNOT00000051936
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)114644316891443168Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)117330848796070872Rat
1598811Bp291Blood pressure QTL 2911.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)113330600878306008Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)115892833699753367Rat
10755497Bp388Blood pressure QTL 3882.76arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)113294306789836615Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)113642841681428416Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)117385089499753367Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)113461876079618760Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)115893182292356038Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)115775483796071021Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112019354996351019Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)116796218499753367Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)117330831599753367Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)113674945981749459Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)115107102196071021Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)112252474682951192Rat
1598841Memor7Memory QTL 7exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)113330600878306008Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)113674945981749459Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)115441539196071021Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)113674945981749459Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)113674945981749459Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)116859932196497754Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)116985594399753367Rat

Markers in Region
D16Mit75  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2767,007,907 - 67,007,946 (+)MAPPERmRatBN7.2
Rnor_6.01167,311,861 - 67,312,476NCBIRnor6.0
Celera1163,826,558 - 63,827,006UniSTS
Cytogenetic Map11q22UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
12 5 27 52 62 65 40 22 40 6 144 61 6 37 27 44 25

Sequence


Ensembl Acc Id: ENSRNOT00000051936   ⟹   ENSRNOP00000043059
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1177,859,068 - 77,864,210 (+)Ensembl
mRatBN7.2 Ensembl1164,353,720 - 64,358,862 (+)Ensembl
Rnor_6.0 Ensembl1167,308,943 - 67,314,172 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000169763   ⟹   ENSRNOP00000107823
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1177,850,936 - 77,864,212 (+)Ensembl
RefSeq Acc Id: NM_001105877   ⟹   NP_001099347
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81177,859,070 - 77,864,212 (+)NCBI
mRatBN7.21164,353,722 - 64,358,864 (+)NCBI
Rnor_6.01167,309,046 - 67,314,181 (+)NCBI
Rnor_5.01170,398,922 - 70,403,785 (+)NCBI
RGSC_v3.41166,030,827 - 66,035,282 (-)RGD
Celera1163,823,743 - 63,828,712 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001099347 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM11283 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000043059
  ENSRNOP00000043059.3
GenBank Protein P01039 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001099347   ⟸   NM_001105877
- UniProtKB: P01039 (UniProtKB/Swiss-Prot),   A6IRD0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000043059   ⟸   ENSRNOT00000051936
Ensembl Acc Id: ENSRNOP00000107823   ⟸   ENSRNOT00000169763
Protein Domains
Cystatin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P01039-F1-model_v2 AlphaFold P01039 1-103 view protein structure

Transcriptome

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

Promoters
RGD ID:13698182
Promoter ID:EPDNEW_R8706
Type:single initiation site
Name:Stfa3_1
Description:stefin A3
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_6.01167,309,032 - 67,309,092EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307831 AgrOrtholog
BioCyc Gene G2FUF-21235 BioCyc
Ensembl Genes ENSRNOG00000033933 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00000088435 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000051936 ENTREZGENE
  ENSRNOT00000051936.5 UniProtKB/Swiss-Prot
Gene3D-CATH 3.10.450.10 UniProtKB/Swiss-Prot
InterPro Cystatin_dom UniProtKB/Swiss-Prot
  Cystatin_sf UniProtKB/Swiss-Prot
  Prot_inh_cystat_CS UniProtKB/Swiss-Prot
  Prot_inh_stefin UniProtKB/Swiss-Prot
KEGG Report rno:288075 UniProtKB/Swiss-Prot
NCBI Gene 288075 ENTREZGENE
PANTHER PTHR11414 UniProtKB/Swiss-Prot
  STEFIN-3 UniProtKB/Swiss-Prot
Pfam Cystatin UniProtKB/Swiss-Prot
PhenoGen Stfa3 PhenoGen
PRINTS STEFINA UniProtKB/Swiss-Prot
PROSITE CYSTATIN UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000033933 RatGTEx
  ENSRNOG00000088435 RatGTEx
SMART SM00043 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54403 UniProtKB/Swiss-Prot
UniProt A0ABK0LUE1_RAT UniProtKB/TrEMBL
  A6IRD0 ENTREZGENE, UniProtKB/TrEMBL
  CYTA_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Stfa3  stefin A3   Stfa3_predicted  stefin A3 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Stfa3_predicted  stefin A3 (predicted)      Symbol and Name status set to approved 70820 APPROVED