Tpbpa (trophoblast specific protein alpha) - Rat Genome Database

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Gene: Tpbpa (trophoblast specific protein alpha) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Tpbpa
Name: trophoblast specific protein alpha
RGD ID: 621454
Description: Predicted to be involved in female pregnancy; INTERACTS WITH acrylamide; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: spongiotrophoblast specific protein; Tpbp
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8173,804,659 - 3,807,029 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl173,804,659 - 3,807,029 (+)EnsemblGRCr8
mRatBN7.2173,799,046 - 3,801,416 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl173,799,046 - 3,801,416 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx173,818,587 - 3,820,957 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0175,360,223 - 5,362,593 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0173,815,024 - 3,817,394 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0174,165,041 - 4,167,411 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl174,165,041 - 4,167,411 (+)Ensemblrn6Rnor6.0
Rnor_5.0176,393,064 - 6,395,434 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4179,484,588 - 9,486,958 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera173,927,865 - 3,930,235 (+)NCBICelera
RGSC_v3.1179,484,587 - 9,486,958 (+)NCBI
Cytogenetic Map17p14NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

References

References - curated
# Reference Title Reference Citation
1. A novel secretory protein produced by rat spongiotrophoblast. Iwatsuki K, etal., Biol Reprod 2000 May;62(5):1352-9.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
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 Tpbpa
10 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:46
Count of miRNA genes:43
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000061427
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131706603Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17136045694Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17143999106Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17143999106Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17143999106Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17212084322087569Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17121499218Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17212084342054133Rat
1549900Iddm20Insulin dependent diabetes mellitus QTL 203.7pancreas integrity trait (VT:0010560)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)17122181410Rat
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122877318Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17138037084Rat

Markers in Region
BI283846  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8173,806,174 - 3,806,432 (+)Marker Load Pipeline
mRatBN7.2173,800,561 - 3,800,819 (+)MAPPERmRatBN7.2
Rnor_6.0174,166,557 - 4,166,814NCBIRnor6.0
Rnor_5.0176,394,580 - 6,394,837UniSTSRnor5.0
RGSC_v3.4179,486,104 - 9,486,361UniSTSRGSC3.4
Celera173,929,381 - 3,929,638UniSTS
RH 3.4 Map1732.8UniSTS
Cytogenetic Map17p14UniSTS
RH128922  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8173,806,844 - 3,807,054 (+)Marker Load Pipeline
mRatBN7.2173,801,231 - 3,801,441 (+)MAPPERmRatBN7.2
Rnor_6.0174,167,227 - 4,167,436NCBIRnor6.0
Rnor_5.0176,395,250 - 6,395,459UniSTSRnor5.0
RGSC_v3.4179,486,774 - 9,486,983UniSTSRGSC3.4
Celera173,930,051 - 3,930,260UniSTS
RH 3.4 Map11618.5UniSTS
Cytogenetic Map17p14UniSTS
BI284841  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8173,805,752 - 3,806,196 (+)Marker Load Pipeline
mRatBN7.2173,800,139 - 3,800,583 (+)MAPPERmRatBN7.2
Rnor_6.0174,166,135 - 4,166,578NCBIRnor6.0
Rnor_5.0176,394,158 - 6,394,601UniSTSRnor5.0
RGSC_v3.4179,485,682 - 9,486,125UniSTSRGSC3.4
Celera173,928,959 - 3,929,402UniSTS
RH 3.4 Map1716.0UniSTS
Cytogenetic Map17p14UniSTS
BI285828  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8173,805,752 - 3,806,196 (+)Marker Load Pipeline
mRatBN7.2173,800,138 - 3,800,583 (+)MAPPERmRatBN7.2
Rnor_6.0174,166,134 - 4,166,578NCBIRnor6.0
Rnor_5.0176,394,157 - 6,394,601UniSTSRnor5.0
RGSC_v3.4179,485,681 - 9,486,125UniSTSRGSC3.4
Celera173,928,958 - 3,929,402UniSTS
RH 3.4 Map1716.0UniSTS
Cytogenetic Map17p14UniSTS


Expression

RNA-SEQ Expression

circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
11 25 7 11 6 12 6 34 23 25 5 18 5

Sequence


Ensembl Acc Id: ENSRNOT00000061427   ⟹   ENSRNOP00000058146
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl173,804,659 - 3,807,029 (+)Ensembl
mRatBN7.2 Ensembl173,799,046 - 3,801,416 (+)Ensembl
Rnor_6.0 Ensembl174,165,041 - 4,167,411 (+)Ensembl
RefSeq Acc Id: NM_172073   ⟹   NP_742070
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8173,804,659 - 3,807,029 (+)NCBI
mRatBN7.2173,799,046 - 3,801,416 (+)NCBI
Rnor_6.0174,165,041 - 4,167,411 (+)NCBI
Rnor_5.0176,393,064 - 6,395,434 (+)NCBI
RGSC_v3.4179,484,588 - 9,486,958 (+)RGD
Celera173,927,865 - 3,930,235 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_742070 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAA32481 (Get FASTA)   NCBI Sequence Viewer  
  EDL93856 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000058146
  ENSRNOP00000058146.2
RefSeq Acc Id: NP_742070   ⟸   NM_172073
- Peptide Label: precursor
- UniProtKB: O88206 (UniProtKB/TrEMBL),   F7EWR8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000058146   ⟸   ENSRNOT00000061427

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O88206-F1-model_v2 AlphaFold O88206 1-124 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:621454 AgrOrtholog
BioCyc Gene G2FUF-10474 BioCyc
Ensembl Genes ENSRNOG00000039975 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061427 ENTREZGENE
  ENSRNOT00000061427.4 UniProtKB/TrEMBL
KEGG Report rno:64509 UniProtKB/TrEMBL
NCBI Gene 64509 ENTREZGENE
PhenoGen Tpbpa PhenoGen
RatGTEx ENSRNOG00000039975 RatGTEx
UniProt F7EWR8 ENTREZGENE, UniProtKB/TrEMBL
  O88206 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Tpbpa  trophoblast specific protein alpha  Tpbp  spongiotrophoblast specific protein  Symbol and Name updated 1299863 APPROVED
2002-08-07 Tpbp  spongiotrophoblast specific protein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression specifically expressed in spongiotrophoblast cells from Day 14 of pregnancy and remained elevated until term 634492