Smr3a (submaxillary gland androgen regulated protein 3A) - Rat Genome Database

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Gene: Smr3a (submaxillary gland androgen regulated protein 3A) Rattus norvegicus
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Symbol: Smr3a
Name: submaxillary gland androgen regulated protein 3A
RGD ID: 1563299
Description: Predicted to enable endopeptidase inhibitor activity. Predicted to be involved in regulation of sensory perception of pain. Predicted to be located in extracellular region. Orthologous to human SMR3A (submaxillary gland androgen regulated protein 3A); INTERACTS WITH acrylamide; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: PR-Vbeta1; submaxillary gland androgen regulated protein 3 homolog A; submaxillary gland androgen regulated protein 3 homolog A (mouse); submaxillary gland androgen-regulated protein 3A; variable coding sequence B1; VCS-beta1; Vcsb1
RGD Orthologs
Human
Mouse
Dog
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81420,332,951 - 20,338,820 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1420,333,031 - 20,338,820 (-)EnsemblGRCr8
mRatBN7.21420,053,779 - 20,059,568 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1420,053,779 - 20,059,568 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1419,984,293 - 19,990,082 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01421,303,174 - 21,308,963 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01420,033,819 - 20,039,609 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1420,298,809 - 20,304,598 (-)NCBIDahl_SR_JrHsd
Lyon_Normotensive1420,279,988 - 20,285,777 (-)NCBILyon_Normotensive
Lyon_Hypertensive1420,285,858 - 20,291,647 (-)NCBILyon_Hypertensive
F344_StmMcwi1420,334,956 - 20,340,745 (-)NCBIF344_StmMcwi
Rnor_6.01421,703,336 - 21,709,074 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1421,703,486 - 21,707,280 (-)Ensemblrn6Rnor6.0
Rnor_5.01421,612,971 - 21,618,709 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41421,573,114 - 21,578,852 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1419,457,194 - 19,462,890 (-)NCBICelera
Cytogenetic Map14p22NCBI
JBrowse:




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:9409774  


Genomics

Comparative Map Data
Smr3a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81420,332,951 - 20,338,820 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1420,333,031 - 20,338,820 (-)EnsemblGRCr8
mRatBN7.21420,053,779 - 20,059,568 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1420,053,779 - 20,059,568 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1419,984,293 - 19,990,082 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01421,303,174 - 21,308,963 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01420,033,819 - 20,039,609 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1420,298,809 - 20,304,598 (-)NCBIDahl_SR_JrHsd
Lyon_Normotensive1420,279,988 - 20,285,777 (-)NCBILyon_Normotensive
Lyon_Hypertensive1420,285,858 - 20,291,647 (-)NCBILyon_Hypertensive
F344_StmMcwi1420,334,956 - 20,340,745 (-)NCBIF344_StmMcwi
Rnor_6.01421,703,336 - 21,709,074 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1421,703,486 - 21,707,280 (-)Ensemblrn6Rnor6.0
Rnor_5.01421,612,971 - 21,618,709 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41421,573,114 - 21,578,852 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1419,457,194 - 19,462,890 (-)NCBICelera
Cytogenetic Map14p22NCBI
SMR3A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38470,360,760 - 70,367,158 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl470,360,760 - 70,367,158 (+)Ensemblhg38GRCh38
GRCh37471,226,477 - 71,232,875 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36471,261,082 - 71,267,412 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34471,407,252 - 71,413,583NCBI
Celera468,584,242 - 68,590,573 (+)NCBICelera
Cytogenetic Map4q13.3NCBI
HuRef467,028,757 - 67,035,088 (+)NCBIHuRef
CHM1_1471,262,572 - 71,268,903 (+)NCBICHM1_1
T2T-CHM13v2.0473,700,273 - 73,706,672 (+)NCBIT2T-CHM13v2.0
Smr3a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39588,139,414 - 88,156,393 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl588,150,408 - 88,156,393 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38587,991,555 - 88,008,534 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl588,002,549 - 88,008,534 (+)Ensemblmm10GRCm38
MGSCv37588,431,550 - 88,437,559 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36589,077,110 - 89,083,094 (+)NCBIMGSCv36mm8
Celera586,186,602 - 86,190,423 (+)NCBICelera
Cytogenetic Map5E1NCBI
cM Map543.56NCBI
LOC608868
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11359,727,093 - 59,734,628 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1359,455,409 - 59,461,001 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01360,523,450 - 60,529,051 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UMICH_Zoey_3.11360,143,201 - 60,148,786 (+)NCBIUMICH_Zoey_3.1
UU_Cfam_GSD_1.01360,788,586 - 60,793,772 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
SMR3A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1718,848,111 - 18,854,957 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660844,062,308 - 4,067,508 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Smr3a
52 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:68
Count of miRNA genes:54
Interacting mature miRNAs:55
Transcripts:ENSRNOT00000002669
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14395787821572472Rat
631528Scl11Serum cholesterol level QTL 114.9blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)141787564536079022Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14140068101Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14140068101Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14939329839411170Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141133490630674469Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141133471628389666Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14395787831121464Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14862139853621398Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141891545442433608Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14395787824886169Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141889519263895192Rat
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)141790672654251504Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141415516Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14131893212Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14862139853621398Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141513759431238250Rat


Expression

RNA-SEQ Expression

ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
5 10 12 8 4 8 14 4 5 2 24 4

Sequence


Ensembl Acc Id: ENSRNOT00000002669   ⟹   ENSRNOP00000002669
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1420,333,031 - 20,338,820 (-)Ensembl
mRatBN7.2 Ensembl1420,053,779 - 20,059,568 (-)Ensembl
Rnor_6.0 Ensembl1421,703,486 - 21,707,280 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000103005   ⟹   ENSRNOP00000091934
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1420,333,219 - 20,338,820 (-)Ensembl
mRatBN7.2 Ensembl1420,053,967 - 20,059,568 (-)Ensembl
RefSeq Acc Id: NM_001017497   ⟹   NP_001017497
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81420,333,031 - 20,338,820 (-)NCBI
mRatBN7.21420,053,779 - 20,059,568 (-)NCBI
Dahl_SR_JrHsd1420,298,809 - 20,304,598 (-)NCBI
Lyon_Normotensive1420,279,988 - 20,285,777 (-)NCBI
Lyon_Hypertensive1420,285,858 - 20,291,647 (-)NCBI
F344_StmMcwi1420,334,956 - 20,340,745 (-)NCBI
Rnor_6.01421,703,336 - 21,709,074 (-)NCBI
Rnor_5.01421,612,971 - 21,618,709 (-)NCBI
RGSC_v3.41421,573,114 - 21,578,852 (-)RGD
Celera1419,457,194 - 19,462,890 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063273460   ⟹   XP_063129530
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81420,332,951 - 20,337,040 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001017497 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129530 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA54831 (Get FASTA)   NCBI Sequence Viewer  
  EDL83138 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000002669
  ENSRNOP00000002669.2
  ENSRNOP00000091934.1
RefSeq Acc Id: NP_001017497   ⟸   NM_001017497
- Peptide Label: precursor
- UniProtKB: Q64371 (UniProtKB/TrEMBL),   F1M9B8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000002669   ⟸   ENSRNOT00000002669
Ensembl Acc Id: ENSRNOP00000091934   ⟸   ENSRNOT00000103005
RefSeq Acc Id: XP_063129530   ⟸   XM_063273460
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M9B8-F1-model_v2 AlphaFold F1M9B8 1-131 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:1563299 AgrOrtholog
BioCyc Gene G2FUF-16148 BioCyc
Ensembl Genes ENSRNOG00000001949 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002669 ENTREZGENE
  ENSRNOT00000002669.4 UniProtKB/TrEMBL
  ENSRNOT00000103005.2 UniProtKB/TrEMBL
InterPro SMR UniProtKB/TrEMBL
KEGG Report rno:498341 UniProtKB/TrEMBL
NCBI Gene 498341 ENTREZGENE
PANTHER PTHR14179 UniProtKB/TrEMBL
  SUBMAXILLARY GLAND ANDROGEN-REGULATED PROTEIN 3B UniProtKB/TrEMBL
Pfam PROL5-SMR UniProtKB/TrEMBL
PhenoGen Smr3a PhenoGen
PRINTS PRICHEXTENSN UniProtKB/TrEMBL
PROSITE PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001949 RatGTEx
UniProt A0A8I6AGJ4_RAT UniProtKB/TrEMBL
  F1M9B8 ENTREZGENE
  Q64371 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary F1M9B8 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Smr3a  submaxillary gland androgen regulated protein 3A  LOC100365038  predicted gene, EG665615-like  Data merged from RGD:2319832 1643240 APPROVED
2010-05-05 LOC100365038  predicted gene, EG665615-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2009-06-15 Smr3a  submaxillary gland androgen regulated protein 3A  Vcsb1_mapped  variable coding sequence B1 (mapped)  Data merged from RGD:3955 1643240 APPROVED
2008-05-19 Smr3a  submaxillary gland androgen regulated protein 3A  Smr3a  submaxillary gland androgen regulated protein 3 homolog A (mouse)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Smr3a  submaxillary gland androgen regulated protein 3 homolog A (mouse)  VCS-beta1  PR-Vbeta1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 VCS-beta1  PR-Vbeta1      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Vcsb1_mapped  variable coding sequence B1 (mapped)      Symbol and Name updated 1556543 APPROVED
2002-06-10 Vcsb1  Variable coding sequence B1      Symbol and Name status set to approved 70586 APPROVED