Psgb1 (pregnancy-specific beta 1-glycoprotein) - Rat Genome Database

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Gene: Psgb1 (pregnancy-specific beta 1-glycoprotein) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Psgb1
Name: pregnancy-specific beta 1-glycoprotein
RGD ID: 727932
Description: Predicted to enable protein tyrosine kinase binding activity. Predicted to be involved in regulation of immune system process and signal transduction. Predicted to be active in cell surface and plasma membrane. Orthologous to human CEACAM1 (CEA cell adhesion molecule 1); INTERACTS WITH ammonium chloride; bisphenol A; fenvalerate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC59313; Psg
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8187,051,246 - 87,060,681 (+)NCBIGRCr8
mRatBN7.2177,923,170 - 77,932,605 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl177,923,170 - 77,932,053 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx183,302,280 - 83,311,168 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0191,866,348 - 91,875,236 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0185,057,404 - 85,066,292 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0179,181,855 - 79,190,738 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl179,181,855 - 79,190,738 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0180,428,741 - 80,437,624 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4177,588,947 - 77,597,830 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1177,667,057 - 77,675,935 (+)NCBI
Celera172,406,679 - 72,415,562 (+)NCBICelera
Cytogenetic Map1q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Characterization and cellular localization of PSG in rat testis. Blomberg LA, etal., Mol Cell Biochem 1997 Dec;177(1-2):229-37.
2. 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.
3. NCBI rat LocusLink and RefSeq merged data October 15, 2003 NCBI rat LocusLink and RefSeq merged data October 15, 2003
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Psgb1
76 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:44
Count of miRNA genes:44
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000037132
Prediction methods:Microtar, 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
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)11148131282174945Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11148131282174945Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11148131282174945Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11148131282174945Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)122340647102268831Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)12887978078430678Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13273727390665040Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
1354599Bw29Body weight QTL 293.460.001body mass (VT:0001259)body weight (CMO:0000012)13344984878449848Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)13344984878449848Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13483685879836858Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13483685879836858Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)13483685879836858Rat
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)13523959878430678Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)13523959878430678Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143284731118944897Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143284731118944897Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143284731118944897Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)143284731118944897Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143284731118944897Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14333300288333002Rat
1331778Rf28Renal function QTL 284.66urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)14580314078430678Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14936146582174945Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14939317294393172Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15386304190532583Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)15389511782174945Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15389511782174945Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)15673266898773277Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)156949932101949932Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)165789093115540829Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)166023617118608521Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)17219768090508767Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)177494165122494165Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)177857876122857876Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)177876254106047988Rat

Markers in Region
RH131610  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2177,932,291 - 77,932,499 (+)MAPPERmRatBN7.2
Rnor_6.0179,190,977 - 79,191,184NCBIRnor6.0
Rnor_5.0180,437,863 - 80,438,070UniSTSRnor5.0
RGSC_v3.4177,598,069 - 77,598,276UniSTSRGSC3.4
Celera172,415,801 - 72,416,008UniSTS
RH 3.4 Map1794.3UniSTS
Cytogenetic Map1q21UniSTS
AI013412  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2177,931,873 - 77,932,032 (+)MAPPERmRatBN7.2
Rnor_6.0179,190,559 - 79,190,717NCBIRnor6.0
Rnor_5.0180,437,445 - 80,437,603UniSTSRnor5.0
RGSC_v3.4177,597,651 - 77,597,809UniSTSRGSC3.4
Celera172,415,383 - 72,415,541UniSTS
RH 3.4 Map1793.6UniSTS
Cytogenetic Map1q21UniSTS
AI179172  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2177,929,304 - 77,929,479 (+)MAPPERmRatBN7.2
Rnor_6.0179,187,990 - 79,188,164NCBIRnor6.0
Rnor_5.0180,434,876 - 80,435,050UniSTSRnor5.0
RGSC_v3.4177,595,082 - 77,595,256UniSTSRGSC3.4
Celera172,412,814 - 72,412,988UniSTS
RH 3.4 Map1791.4UniSTS
Cytogenetic Map1q21UniSTS


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 endocrine system exocrine system hepatobiliary system nervous system reproductive system respiratory system
High
Medium
Low 2 2 2 9 8
Below cutoff 1 6 6 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000037132   ⟹   ENSRNOP00000034066
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl177,923,170 - 77,932,053 (+)Ensembl
Rnor_6.0 Ensembl179,181,855 - 79,190,738 (+)Ensembl
RefSeq Acc Id: NM_021677   ⟹   NP_067709
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8187,051,246 - 87,060,681 (+)NCBI
mRatBN7.2177,923,170 - 77,932,605 (+)NCBI
Rnor_6.0179,181,855 - 79,190,738 (+)NCBI
Rnor_5.0180,428,741 - 80,437,624 (+)NCBI
RGSC_v3.4177,588,947 - 77,597,830 (+)RGD
Celera172,406,679 - 72,415,562 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_067709 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAD00153 (Get FASTA)   NCBI Sequence Viewer  
  EDM08271 (Get FASTA)   NCBI Sequence Viewer  
  EDM08272 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000034066
  ENSRNOP00000034066.2
Reference Protein Sequences
RefSeq Acc Id: NP_067709   ⟸   NM_021677
- UniProtKB: G3V925 (UniProtKB/TrEMBL),   A6J8G3 (UniProtKB/TrEMBL),   Q9Z1D6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000034066   ⟸   ENSRNOT00000037132
Protein Domains
Ig-like   Immunoglobulin V-set

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V925-F1-model_v2 AlphaFold G3V925 1-380 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:727932 AgrOrtholog
BioCyc Gene G2FUF-60573 BioCyc
Ensembl Genes ENSRNOG00000027288 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000037132 ENTREZGENE
  ENSRNOT00000037132.3 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_I-set UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
KEGG Report rno:59313 UniProtKB/TrEMBL
NCBI Gene 59313 ENTREZGENE
PANTHER CARCINOEMBRYONIC ANTIGEN-RELATED CELL ADHESION MOLECULE 1 UniProtKB/TrEMBL
  CARCINOEMBRYONIC ANTIGEN-RELATED CELL ADHESION MOLECULE 19 UniProtKB/TrEMBL
  CARCINOEMBRYONIC ANTIGEN-RELATED CELL ADHESION MOLECULE 21 UniProtKB/TrEMBL
  SIGNALING LYMPHOCYTIC ACTIVATION MOLECULE UniProtKB/TrEMBL
Pfam I-set UniProtKB/TrEMBL
  V-set UniProtKB/TrEMBL
PhenoGen Psgb1 PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
RatGTEx ENSRNOG00000027288 RatGTEx
SMART IGc2 UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt A6J8G2_RAT UniProtKB/TrEMBL
  A6J8G3 ENTREZGENE, UniProtKB/TrEMBL
  G3V925 ENTREZGENE, UniProtKB/TrEMBL
  Q9Z1D6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-07-08 Psgb1  pregnancy-specific beta 1-glycoprotein  LOC59313    Symbol updated 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in testis 1299603