Svs3b (seminal vesicle secretory protein 3B) - Rat Genome Database

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Gene: Svs3b (seminal vesicle secretory protein 3B) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Svs3b
Name: seminal vesicle secretory protein 3B
RGD ID: 1564090
Description: Predicted to be involved in sperm capacitation. Predicted to be located in extracellular region. Orthologous to human SEMG1 (semenogelin 1) and SEMG2 (semenogelin 2).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC100909631; LOC103691966; LOC296354; RGD1564090; seminal vesicle secretion 3 beta; seminal vesicle secretory protein 2-like; similar to seminal vesicle secretion 3; SVS3
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83173,349,024 - 173,351,883 (-)NCBIGRCr8
mRatBN7.23152,929,645 - 152,931,919 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3152,929,645 - 152,931,919 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3156,739,456 - 156,741,728 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03165,238,397 - 165,240,669 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03162,983,652 - 162,985,924 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03159,082,346 - 159,084,621 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3160,648,449 - 160,649,471 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl3160,679,301 - 160,680,323 (+)NCBIRnor6.0rn6Rnor6.0
Rnor_5.03166,830,777 - 166,833,051 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43155,198,766 - 155,201,040 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3151,574,527 - 151,576,801 (-)NCBICelera
Cytogenetic Map3q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Svs3b
16 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:184
Count of miRNA genes:137
Interacting mature miRNAs:155
Transcripts:ENSRNOT00000055166, ENSRNOT00000071681
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
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3130193298161695983Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141339013162184794Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141339236155617360Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3145925360166177555Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3145925360166177555Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3145925360166177555Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3145925360166177555Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3145925360166177555Rat
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3145925360166177555Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3145925360166177555Rat
1300113Bp176Blood pressure QTL 1763.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3145956084157309487Rat
1598854Memor10Memory QTL 102exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)3145956084161299569Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3149040888168026850Rat

Markers in Region
BF417389  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.03166,864,726 - 166,864,893NCBIRnor5.0
Rnor_5.03165,323,882 - 165,324,049NCBIRnor5.0
Rnor_5.03165,290,144 - 165,290,313NCBIRnor5.0
Rnor_5.03166,830,990 - 166,831,159NCBIRnor5.0
RGSC_v3.43155,232,717 - 155,232,883UniSTSRGSC3.4
RGSC_v3.43155,198,980 - 155,199,148UniSTSRGSC3.4
Celera3151,608,459 - 151,608,625UniSTS
Celera3151,574,741 - 151,574,909UniSTS
RH 3.4 Map31421.2UniSTS
Cytogenetic Map3q42UniSTS


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

reproductive system
High
Medium
Low
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000055166   ⟹   ENSRNOP00000052041
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3152,929,645 - 152,931,919 (-)Ensembl
Rnor_6.0 Ensembl3159,082,346 - 159,084,621 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000071681   ⟹   ENSRNOP00000067529
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3160,648,449 - 160,649,471 (-)Ensembl
RefSeq Acc Id: NM_001102417   ⟹   NP_001095887
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83173,349,024 - 173,351,298 (-)NCBI
mRatBN7.23152,929,645 - 152,931,919 (-)NCBI
Rnor_6.03159,082,346 - 159,084,621 (-)NCBI
Rnor_5.03166,830,777 - 166,833,051 (-)NCBI
RGSC_v3.43155,198,766 - 155,201,040 (-)RGD
Celera3151,574,527 - 151,576,801 (-)RGD
Sequence:
RefSeq Acc Id: XM_063283390   ⟹   XP_063139460
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83173,349,033 - 173,351,883 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001095887 (Get FASTA)   NCBI Sequence Viewer  
  XP_063139460 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAP80793 (Get FASTA)   NCBI Sequence Viewer  
  EDL96542 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000052041
  ENSRNOP00000052041.2
Reference Protein Sequences
RefSeq Acc Id: NP_001095887   ⟸   NM_001102417
- Peptide Label: precursor
- UniProtKB: D3ZAT0 (UniProtKB/TrEMBL),   A6JX69 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067529   ⟸   ENSRNOT00000071681
RefSeq Acc Id: ENSRNOP00000052041   ⟸   ENSRNOT00000055166
RefSeq Acc Id: XP_063139460   ⟸   XM_063283390
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZAT0-F1-model_v2 AlphaFold D3ZAT0 1-264 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:1564090 AgrOrtholog
BioCyc Gene G2FUF-46874 BioCyc
Ensembl Genes ENSRNOG00000036782 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000049613 Ensembl
  ENSRNOG00000059369 Ensembl
Ensembl Transcript ENSRNOT00000055166 ENTREZGENE
  ENSRNOT00000055166.3 UniProtKB/TrEMBL
InterPro Semenogelin UniProtKB/TrEMBL
KEGG Report rno:296354 UniProtKB/TrEMBL
NCBI Gene 296354 ENTREZGENE
PANTHER SEMENOGELIN/SEMINAL VESICLE SECRETORY PROTEIN UniProtKB/TrEMBL
  SEMINAL VESICLE SECRETORY PROTEIN 3A-RELATED UniProtKB/TrEMBL
Pfam Semenogelin UniProtKB/TrEMBL
PhenoGen Svs3b PhenoGen
RatGTEx ENSRNOG00000036782 RatGTEx
  ENSRNOG00000049613 RatGTEx
  ENSRNOG00000059369 RatGTEx
UniProt A6JX69 ENTREZGENE, UniProtKB/TrEMBL
  D3ZAT0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Svs3b  seminal vesicle secretory protein 3B  LOC103691966  seminal vesicle secretory protein 2-like  Data merged from RGD:9171417 737654 PROVISIONAL
2015-07-29 LOC103691966  seminal vesicle secretory protein 2-like  LOC100909631  seminal vesicle secretory protein 2-like  Data merged from RGD:6502797 737654 PROVISIONAL
2014-08-25 LOC103691966  seminal vesicle secretory protein 2-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2012-07-05 LOC100909631  seminal vesicle secretory protein 2-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-03-06 Svs3b  seminal vesicle secretory protein 3B  RGD1564090_predicted  similar to seminal vesicle secretion 3 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1564090_predicted  similar to seminal vesicle secretion 3 (predicted)  LOC296354  similar to seminal vesicle secretion 3  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC296354  similar to seminal vesicle secretion 3      Symbol and Name status set to provisional 70820 PROVISIONAL