Smr3b (submaxillary gland androgen regulated protein 3B) - Rat Genome Database

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Gene: Smr3b (submaxillary gland androgen regulated protein 3B) Rattus norvegicus
Analyze
Symbol: Smr3b
Name: submaxillary gland androgen regulated protein 3B
RGD ID: 3953
Description: Enables endopeptidase inhibitor activity. Involved in cellular response to lipopolysaccharide; negative regulation of peptidase activity; and regulation of sensory perception of pain. Located in extracellular region. Orthologous to human SMR3B (submaxillary gland androgen regulated protein 3B); INTERACTS WITH 6-propyl-2-thiouracil; ammonium chloride; cadmium dichloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: androgen regulated protein; Arp; P2-VA1; RATSMR1A; RNSMR1G; sialorphin; Smr1; Smr1g; variable coding sequence A1; Variable coding sequence A1 (androgen regulated protein (SMR1) gene); VCS-alpha 1; Vcsa1
RGD Orthologs
Human
Mouse
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21419,783,815 - 19,788,557 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1419,783,816 - 19,788,492 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1419,749,173 - 19,753,847 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01421,068,052 - 21,072,726 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01419,793,412 - 19,798,084 (-)NCBIRnor_WKY
Rnor_6.01421,490,216 - 21,709,077 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1421,490,217 - 21,709,084 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01421,398,109 - 21,472,541 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41421,378,053 - 21,382,729 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11421,376,219 - 21,382,743 (-)NCBI
Celera1419,117,184 - 19,121,854 (-)NCBICelera
Cytogenetic Map14p22NCBI
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. Various transcripts are generated from the VCSA1 gene by alternative splicing and poly(A) processing in the rat submandibular gland. Courty Y, etal., Gene 1995 Sep 11;162(2):291-6.
2. Episodic evolution and rapid divergence of members of the rat multigene family encoding the salivary prohormone-like protein SMR1. Courty Y, etal., Mol Biol Evol 1996 Jul;13(6):758-66.
3. 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.
4. A novel submandibular gland peptide protects against endotoxic and anaphylactic shock. Mathison RD, etal., Am J Physiol. 1997 Sep;273(3 Pt 2):R1017-23.
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. The gene encoding SMR1, a precursor-like polypeptide of the male rat submaxillary gland, has the same organization as the preprothyrotropin-releasing hormone gene. Rosinski-Chupin I and Rougeon F, DNA Cell Biol 1990 Oct;9(8):553-9.
8. High level of accumulation of a mRNA coding for a precursor-like protein in the submaxillary gland of male rats. Rosinski-Chupin I, etal., Proc Natl Acad Sci U S A 1988 Nov;85(22):8553-7.
9. Selective processing of submandibular rat 1 protein at dibasic cleavage sites. Salivary and bloodstream secretion products. Rougeot C, etal., Eur J Biochem. 1994 Feb 1;219(3):765-73.
10. Sialorphin, a natural inhibitor of rat membrane-bound neutral endopeptidase that displays analgesic activity. Rougeot C, etal., Proc Natl Acad Sci U S A. 2003 Jul 8;100(14):8549-54. Epub 2003 Jun 30.
11. Recent evolution of genes encoding the prohormone-like protein SMR1 in the rat submandibular gland. Singer M, etal., DNA Cell Biol 1995 Feb;14(2):137-44.
Additional References at PubMed
PMID:9362294   PMID:15555512   PMID:19109528   PMID:19428993   PMID:23533145   PMID:24803544  


Genomics

Comparative Map Data
Smr3b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21419,783,815 - 19,788,557 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1419,783,816 - 19,788,492 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1419,749,173 - 19,753,847 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01421,068,052 - 21,072,726 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01419,793,412 - 19,798,084 (-)NCBIRnor_WKY
Rnor_6.01421,490,216 - 21,709,077 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1421,490,217 - 21,709,084 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01421,398,109 - 21,472,541 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41421,378,053 - 21,382,729 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11421,376,219 - 21,382,743 (-)NCBI
Celera1419,117,184 - 19,121,854 (-)NCBICelera
Cytogenetic Map14p22NCBI
SMR3B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38470,383,131 - 70,390,244 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl470,370,093 - 70,390,244 (+)EnsemblGRCh38hg38GRCh38
GRCh37471,248,848 - 71,255,961 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36471,283,384 - 71,290,550 (+)NCBINCBI36Build 36hg18NCBI36
Build 34471,429,617 - 71,436,719NCBI
Celera468,606,545 - 68,613,711 (+)NCBICelera
Cytogenetic Map4q13.3NCBI
HuRef467,051,051 - 67,058,217 (+)NCBIHuRef
CHM1_1471,284,860 - 71,292,027 (+)NCBICHM1_1
T2T-CHM13v2.0473,722,631 - 73,729,748 (+)NCBIT2T-CHM13v2.0
Smr2l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39588,416,778 - 88,430,694 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl588,416,778 - 88,430,694 (+)EnsemblGRCm39 Ensembl
GRCm38588,268,919 - 88,282,835 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl588,268,919 - 88,282,835 (+)EnsemblGRCm38mm10GRCm38
MGSCv37588,697,944 - 88,711,860 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36589,343,480 - 89,357,396 (+)NCBIMGSCv36mm8
Celera586,421,352 - 86,435,251 (+)NCBICelera
Cytogenetic Map5E1NCBI
SMR3B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1718,892,457 - 18,900,365 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660844,000,372 - 4,007,178 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Smr3b
91 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:8
Count of miRNA genes:8
Interacting mature miRNAs:8
Transcripts:ENSRNOT00000031642
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14381307421217635Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14381307424531477Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14381307430767156Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14908897839057237Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062228035204Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141103081230320092Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141487516830883947Rat
71117Niddm17Non-insulin dependent diabetes mellitus QTL 172.35blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)141759376142336881Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141762256142337007Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141854133263541332Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141863134542337007Rat

Markers in Region
D14Wox13  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21419,848,039 - 19,848,270 (+)MAPPERmRatBN7.2
mRatBN7.21419,858,811 - 19,859,012 (+)MAPPERmRatBN7.2
Rnor_6.01421,555,076 - 21,555,306NCBIRnor6.0
Rnor_6.01421,565,227 - 21,565,427NCBIRnor6.0
Rnor_5.01421,473,667 - 21,473,867UniSTSRnor5.0
Rnor_5.01421,463,516 - 21,463,746UniSTSRnor5.0
RGSC_v3.41421,435,249 - 21,435,480RGDRGSC3.4
RGSC_v3.41421,383,854 - 21,384,062RGDRGSC3.4
RGSC_v3.41421,446,021 - 21,446,222RGDRGSC3.4
RGSC_v3.11421,435,249 - 21,435,480RGD
RH 3.4 Map14288.2RGD
RH 3.4 Map14288.2UniSTS
Cytogenetic Map14p22-p21UniSTS
D14Wox17  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21419,858,792 - 19,859,003 (+)MAPPERmRatBN7.2
Rnor_6.01421,565,208 - 21,565,418NCBIRnor6.0
Rnor_5.01421,473,648 - 21,473,858UniSTSRnor5.0
RGSC_v3.41421,446,003 - 21,446,213UniSTSRGSC3.4
RGSC_v3.41421,383,836 - 21,384,053UniSTSRGSC3.4
Celera1419,122,968 - 19,123,179UniSTS
Celera1419,183,961 - 19,184,171UniSTS
Cytogenetic Map14p22-p21UniSTS
D14Hmgc4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21419,848,019 - 19,848,266 (+)MAPPERmRatBN7.2
Rnor_6.01421,555,056 - 21,555,302NCBIRnor6.0
Rnor_5.01421,463,496 - 21,463,742UniSTSRnor5.0
RGSC_v3.41421,435,230 - 21,435,476UniSTSRGSC3.4
RGSC_v3.41421,435,229 - 21,435,476RGDRGSC3.4
RGSC_v3.41421,383,834 - 21,384,058RGDRGSC3.4
RGSC_v3.41421,383,835 - 21,384,058UniSTSRGSC3.4
Celera1419,173,188 - 19,173,434UniSTS
Celera1419,122,967 - 19,123,184UniSTS
Cytogenetic Map14p22-p21UniSTS
AW533278  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21419,783,856 - 19,784,013 (+)MAPPERmRatBN7.2
Rnor_6.01421,490,258 - 21,490,414NCBIRnor6.0
Rnor_5.01421,398,150 - 21,398,306UniSTSRnor5.0
RGSC_v3.41421,378,094 - 21,378,250UniSTSRGSC3.4
Celera1419,117,226 - 19,117,382UniSTS
RH 3.4 Map14288.3UniSTS
Cytogenetic Map14p22-p21UniSTS


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
Low 3 11 4 10 1
Below cutoff 2 2 9 3 5 3 3 3 18 4 9 7 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000031642   ⟹   ENSRNOP00000035658
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1421,490,279 - 21,553,949 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087477   ⟹   ENSRNOP00000073073
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1419,783,816 - 19,788,492 (-)Ensembl
Rnor_6.0 Ensembl1421,490,217 - 21,709,084 (-)Ensembl
RefSeq Acc Id: NM_012684   ⟹   NP_036816
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21419,783,815 - 19,788,485 (-)NCBI
Rnor_6.01421,490,216 - 21,709,077 (-)NCBI
Rnor_5.01421,398,109 - 21,472,541 (-)NCBI
RGSC_v3.41421,378,053 - 21,382,729 (-)RGD
Celera1419,117,184 - 19,121,854 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039091622   ⟹   XP_038947550
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21419,783,815 - 19,788,557 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_036816   ⟸   NM_012684
- Peptide Label: precursor
- UniProtKB: P13432 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000035658   ⟸   ENSRNOT00000031642
RefSeq Acc Id: ENSRNOP00000073073   ⟸   ENSRNOT00000087477
RefSeq Acc Id: XP_038947550   ⟸   XM_039091622
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K4K1 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P13432-F1-model_v2 AlphaFold P13432 1-146 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:3953 AgrOrtholog
BioCyc Gene G2FUF-16152 BioCyc
Ensembl Genes ENSRNOG00000001942 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000073073 ENTREZGENE
  ENSRNOP00000073073.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000087477 ENTREZGENE
  ENSRNOT00000087477.2 UniProtKB/TrEMBL
InterPro SMR-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24867 UniProtKB/Swiss-Prot
NCBI Gene 24867 ENTREZGENE
PANTHER PTHR14179 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PROL5-SMR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Smr3b PhenoGen
UniProt A0A0G2K4K1 ENTREZGENE, UniProtKB/TrEMBL
  P13432 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-09 Smr3b  submaxillary gland androgen regulated protein 3B  Vcsa1  variable coding sequence A1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Vcsa1  variable coding sequence A1    Variable coding sequence A1 (androgen regulated protein (SMR1) gene)  Name updated 629478 APPROVED
2002-06-10 Vcsa1  Variable coding sequence A1 (androgen regulated protein (SMR1) gene)      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed mainly in the submandibular glands (SMG) of male rats 634469
gene_protein 146 amino acids 634468