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: a secretory protein that may play a role in spongiotrophoblast cells during the latter half of pregnancy
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: spongiotrophoblast specific protein; Tpbp
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8173,804,659 - 3,807,029 (+)NCBIGRCr8
mRatBN7.2173,799,046 - 3,801,416 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl173,799,046 - 3,801,416 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx173,818,587 - 3,820,957 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0175,360,223 - 5,362,593 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0173,815,024 - 3,817,394 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0174,165,041 - 4,167,411 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl174,165,041 - 4,167,411 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0176,393,064 - 6,395,434 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4179,484,588 - 9,486,958 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1179,484,587 - 9,486,958 (+)NCBI
Celera173,927,865 - 3,930,235 (+)NCBICelera
Cytogenetic Map17p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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
5 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122871563Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17211514921881669Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17211514934551001Rat
631499Stl1Serum triglyceride level QTL 13.6blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)17327139827389946Rat

Markers in Region
BI283846  
Rat AssemblyChrPosition (strand)SourceJBrowse
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
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
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
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
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system nervous system renal system reproductive system
High
Medium 9 5
Low 2 2 7 2 10 2 5
Below cutoff 9 4 4 3 4 6 2 3

Sequence


RefSeq Acc Id: ENSRNOT00000061427   ⟹   ENSRNOP00000058146
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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:
RefSeq 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
  ENSRNOT00000061427.3 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