Semg1 (semenogelin 1) - Rat Genome Database

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Gene: Semg1 (semenogelin 1) Rattus norvegicus
Analyze
Symbol: Semg1
Name: semenogelin 1
RGD ID: 3790
Description: Predicted to enable zinc ion binding activity. Predicted to be involved in several processes, including negative regulation of calcium ion import; negative regulation of flagellated sperm motility; and sperm capacitation. Predicted to act upstream of or within fertilization. Predicted to be part of protein-containing complex. Predicted to be active in acrosomal vesicle and extracellular space. Orthologous to several human genes including SEMG1 (semenogelin 1); INTERACTS WITH ammonium chloride; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: RATSVPIIA; semenogelin I; seminal vesicle protein, secretion 1; seminal vesicle protein, secretion 2; seminal vesicle secretory protein 2; seminal vesicle secretory protein II; Svp1; SVPIIA; SVS II; Svs2; SVS2P; Svs2p2
RGD Orthologs
Human
Mouse
Bonobo
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83173,329,413 - 173,332,261 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3173,329,414 - 173,332,261 (-)EnsemblGRCr8
mRatBN7.23152,910,033 - 152,912,882 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3152,910,034 - 152,912,882 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3156,717,524 - 156,720,371 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03165,216,464 - 165,219,312 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03162,961,782 - 162,964,620 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03160,627,609 - 160,630,457 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3160,627,610 - 160,630,457 (-)Ensemblrn6Rnor6.0
Rnor_5.03166,811,166 - 166,814,014 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43155,179,283 - 155,182,131 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3151,554,969 - 151,557,817 (-)NCBICelera
RGSC_v3.13155,085,319 - 155,088,167 (-)NCBI
Cytogenetic Map3q42NCBI
JBrowse:




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. Structural characterization of the rat seminal vesicle secretion II protein and gene. Harris SE, etal., J Biol Chem 1990 Jun 15;265(17):9896-903.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. GOA pipeline RGD automated data pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. 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.
8. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:2912989   PMID:6466291   PMID:8665951   PMID:8665956   PMID:15563730   PMID:17123940   PMID:17567961   PMID:18314226   PMID:18714013   PMID:19889947   PMID:21630459   PMID:22075473  
PMID:23533145  


Genomics

Comparative Map Data
Semg1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83173,329,413 - 173,332,261 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3173,329,414 - 173,332,261 (-)EnsemblGRCr8
mRatBN7.23152,910,033 - 152,912,882 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3152,910,034 - 152,912,882 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3156,717,524 - 156,720,371 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03165,216,464 - 165,219,312 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03162,961,782 - 162,964,620 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03160,627,609 - 160,630,457 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3160,627,610 - 160,630,457 (-)Ensemblrn6Rnor6.0
Rnor_5.03166,811,166 - 166,814,014 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43155,179,283 - 155,182,131 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3151,554,969 - 151,557,817 (-)NCBICelera
RGSC_v3.13155,085,319 - 155,088,167 (-)NCBI
Cytogenetic Map3q42NCBI
SEMG1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382045,207,033 - 45,209,768 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2045,207,033 - 45,210,605 (+)Ensemblhg38GRCh38
GRCh372043,835,674 - 43,838,409 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362043,269,088 - 43,271,823 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342043,269,087 - 43,271,822NCBI
Celera2040,544,235 - 40,547,011 (+)NCBICelera
Cytogenetic Map20q13.12NCBI
HuRef2040,577,518 - 40,580,294 (+)NCBIHuRef
CHM1_12043,738,369 - 43,740,966 (+)NCBICHM1_1
T2T-CHM13v2.02046,942,926 - 46,945,661 (+)NCBIT2T-CHM13v2.0
Semg1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392164,077,849 - 164,080,261 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2164,077,849 - 164,080,386 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm382164,235,929 - 164,238,341 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2164,235,929 - 164,238,466 (-)Ensemblmm10GRCm38
MGSCv372164,061,665 - 164,064,077 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv362163,927,370 - 163,929,706 (-)NCBIMGSCv36mm8
Celera2170,167,839 - 170,170,251 (-)NCBICelera
Cytogenetic Map2H3NCBI
cM Map284.82NCBI
SEMG1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22150,940,267 - 50,942,436 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12050,933,374 - 50,935,543 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02041,537,773 - 41,539,964 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12042,628,856 - 42,631,405 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2042,628,856 - 42,631,405 (+)EnsemblpanPan2panpan1.1
LOC103214213
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1218,600,260 - 18,626,326 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605067,269,118 - 67,272,402 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:160
Count of miRNA genes:118
Interacting mature miRNAs:126
Transcripts:ENSRNOT00000018420
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
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141555229186555229Rat
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3141555229186555229Rat
1582233Insul10Insulin level QTL 105.40.0015blood insulin amount (VT:0001560)serum insulin level times blood glucose level (CMO:0002040)3133259579178259579Rat
1300113Bp176Blood pressure QTL 1763.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3166376089177728348Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3141555229186555229Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3151075912189428310Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3141555229186555229Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)3129154923182114333Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3141555229186555229Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161492708189428310Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3141555229186555229Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3166376089189428310Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161799493176036425Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3161799270187311134Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3133134628178134628Rat
1582213Insul6Insulin level QTL 63.70.0009blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
1598854Memor10Memory QTL 102exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)3166376089189428310Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3152055202189428310Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3142898802187898802Rat
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)379649560177741895Rat
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)3145335553189428310Rat
1582256Insul9Insulin level QTL 94.40.0016blood insulin amount (VT:0001560)absolute change in serum insulin level (CMO:0002038)3155759447189428310Rat
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)3139299381184299381Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3141508991177728348Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3137114333182114333Rat
1582248Insul7Insulin level QTL 73.90.0041blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)3131036586176036586Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)3131036586176036586Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3151075912189428310Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3151075912189428310Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3141555229186555229Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3144575244189428310Rat

Markers in Region
D3Wox7  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr83173,334,200 - 173,334,379 (+)Marker Load Pipeline
mRatBN7.23152,914,821 - 152,915,000 (+)MAPPERmRatBN7.2
Rnor_6.03160,632,397 - 160,632,575NCBIRnor6.0
Celera3151,559,756 - 151,559,882UniSTS
RH 3.4 Map31406.5RGD
RH 3.4 Map31406.5UniSTS
RH 2.0 Map3957.4RGD
Cytogenetic Map3 RGD
D3Arb13  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr83173,334,172 - 173,334,383 (+)Marker Load Pipeline
mRatBN7.23152,914,793 - 152,915,004 (+)MAPPERmRatBN7.2
Rnor_6.03160,632,369 - 160,632,579NCBIRnor6.0
Rnor_5.03166,815,926 - 166,816,135UniSTSRnor5.0
Celera3151,559,728 - 151,559,886UniSTS
Cytogenetic Map3q42UniSTS
D1Bda73  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21196,269,355 - 196,269,538 (+)MAPPERmRatBN7.2
Rnor_6.01214,151,400 - 214,151,582NCBIRnor6.0
Rnor_5.01221,068,685 - 221,068,867UniSTSRnor5.0
RGSC_v3.41201,358,701 - 201,358,883UniSTSRGSC3.4
Celera1193,903,272 - 193,903,454UniSTS
Cytogenetic Map3q42UniSTS
Cytogenetic Map1q41UniSTS
BI274477  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81205,698,961 - 205,699,299 (+)Marker Load Pipeline
mRatBN7.21196,269,372 - 196,269,710 (+)MAPPERmRatBN7.2
Rnor_6.01214,151,417 - 214,151,754NCBIRnor6.0
Rnor_5.01221,068,702 - 221,069,039UniSTSRnor5.0
RGSC_v3.41201,358,718 - 201,359,055UniSTSRGSC3.4
Celera1193,903,289 - 193,903,626UniSTS
Cytogenetic Map3q42UniSTS
Cytogenetic Map1q41UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
1 2 11 16 20 8 56 8 110 61 9 40 24 12

Sequence


Ensembl Acc Id: ENSRNOT00000018420   ⟹   ENSRNOP00000018420
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3173,329,414 - 173,332,261 (-)Ensembl
mRatBN7.2 Ensembl3152,910,034 - 152,912,882 (-)Ensembl
Rnor_6.0 Ensembl3160,627,610 - 160,630,457 (-)Ensembl
RefSeq Acc Id: NM_012710   ⟹   NP_036842
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83173,329,413 - 173,332,261 (-)NCBI
mRatBN7.23152,910,033 - 152,912,882 (-)NCBI
Rnor_6.03160,627,609 - 160,630,457 (-)NCBI
Rnor_5.03166,811,166 - 166,814,014 (-)NCBI
RGSC_v3.43155,179,283 - 155,182,131 (-)RGD
Celera3151,554,969 - 151,557,817 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_036842 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA42192 (Get FASTA)   NCBI Sequence Viewer  
  AAH61977 (Get FASTA)   NCBI Sequence Viewer  
  EDL96540 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000018420
GenBank Protein P22006 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_036842   ⟸   NM_012710
- Peptide Label: precursor
- UniProtKB: P22006 (UniProtKB/Swiss-Prot),   Q6P6X2 (UniProtKB/TrEMBL),   F7F562 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000018420   ⟸   ENSRNOT00000018420

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P22006-F1-model_v2 AlphaFold P22006 1-414 view protein structure

Transcriptome

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

Promoters
RGD ID:13692648
Promoter ID:EPDNEW_R3171
Type:multiple initiation site
Name:Semg1_1
Description:semenogelin I
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_6.03160,630,470 - 160,630,530EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3790 AgrOrtholog
BioCyc Gene G2FUF-46875 BioCyc
Ensembl Genes ENSRNOG00000013776 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000018420 ENTREZGENE
IMAGE_CLONE IMAGE:5623736 IMAGE-MGC_LOAD
InterPro Seminal_vesicle_protein_repeat UniProtKB/Swiss-Prot
  SVP_II_CS UniProtKB/Swiss-Prot
MGC_CLONE MGC:72513 IMAGE-MGC_LOAD
NCBI Gene 25013 ENTREZGENE
PANTHER SEMENOGELIN/SEMINAL VESICLE SECRETORY PROTEIN UniProtKB/Swiss-Prot
  SEMINAL VESICLE SECRETORY PROTEIN 2 UniProtKB/Swiss-Prot
Pfam SVS_QK UniProtKB/Swiss-Prot
PhenoGen Semg1 PhenoGen
PROSITE SVP_II UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000013776 RatGTEx
TIGR TC216754
UniProt F7F562 ENTREZGENE, UniProtKB/TrEMBL
  P22006 ENTREZGENE
  Q6P6X2 ENTREZGENE, UniProtKB/TrEMBL
  SVS2_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-02-19 Semg1  semenogelin 1  Semg1  semenogelin I  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-06-15 Semg1  semenogelin I  Semg1_mapped  semenogelin I (mapped)  Data merged from RGD:67371 1643240 APPROVED
2008-11-14 Semg1  semenogelin I  Svs2  seminal vesicle secretory protein 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-18 Svs2  seminal vesicle secretory protein 2  Svs2  seminal vesicle protein, secretion 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 Semg1_mapped  semenogelin I (mapped)  Semg1  semenogelin I  Symbol and Name updated 1556543 APPROVED
2003-04-09 Semg1  semenogelin I    semenogelin 1  Name updated 629478 APPROVED
2002-06-10 Svs2  Seminal vesicle protein, secretion 2      Symbol and Name status set to approved 70586 APPROVED
2002-06-10 Semg1  semenogelin 1      Symbol and Name status set to approved 70585 APPROVED
2001-10-25 Semg1  semenogelin I      Name updated 68916 RESERVED

RGD Curation Notes
Note Type Note Reference
gene_domains three conserved characteristic elements of seminal vesicle secretion genes are present in the 5'-flanking region 634192
gene_expression isolated from dorsal prostate androgen-dependent mRNA using a cDNA probe 634192
gene_transcript 5000 base pairs region which has two exons 634192