Pbsn (probasin) - Rat Genome Database

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Gene: Pbsn (probasin) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Pbsn
Name: probasin
RGD ID: 708571
Description: Predicted to enable odorant binding activity. Predicted to be located in extracellular region and nucleus. Predicted to be active in extracellular space; INTERACTS WITH 1-nitropropane; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC103689993; LOC54193; M-40; PB
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Is Marker For: Strains:   SD-Tg(Pbsn-TAg)1Obs
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X45,792,738 - 45,807,983 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX45,792,738 - 45,807,983 (-)EnsemblGRCr8
mRatBN7.2X41,914,346 - 41,929,591 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX41,914,346 - 41,929,591 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX43,215,064 - 43,230,309 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X46,682,406 - 46,697,651 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X44,347,142 - 44,362,387 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X45,171,944 - 45,187,189 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX45,178,446 - 45,187,149 (-)Ensemblrn6Rnor6.0
Rnor_6.0 EnsemblX45,244,038 - 45,259,492 (-)Ensemblrn6Rnor6.0
Rnor_5.0X45,466,157 - 45,481,633 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X63,581,742 - 63,597,497 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX42,568,559 - 42,583,804 (-)NCBICelera
RGSC_v3.1X63,635,210 - 63,650,966 (-)NCBI
Cytogenetic MapXq21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Effects of genetic background on prostate and taste bud carcinogenesis due to SV40 T antigen expression under probasin gene promoter control. Asamoto M, etal., Carcinogenesis 2002 Mar;23(3):463-7.
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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Regulation of a bifunctional mRNA results in synthesis of secreted and nuclear probasin. Spence AM, etal., Proc Natl Acad Sci U S A 1989 Oct;86(20):7843-7.
6. 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.
7. An androgen-dependent upstream enhancer is essential for high levels of probasin gene expression. Zhang J, etal., Endocrinology 2004 Jan;145(1):134-48. Epub 2003 Sep 18.
Additional References at PubMed
PMID:11058766   PMID:15489334   PMID:22206666  


Genomics

Variants

.
Variants in Pbsn
96 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:131
Count of miRNA genes:103
Interacting mature miRNAs:104
Transcripts:ENSRNOT00000046768
Prediction methods:Microtar, 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
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X197044046970440Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX45182909117740458Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X811148653111486Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X4493088389930883Rat


Related Rat Strains
The following Strains have been annotated to Pbsn
SD-Tg(Pbsn-TAg)1Obs    


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
respiratory system
7 1 12 33 26 24 24 3 43 10 2 2 2

Sequence


Ensembl Acc Id: ENSRNOT00000046768   ⟹   ENSRNOP00000042730
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX45,792,738 - 45,807,983 (-)Ensembl
mRatBN7.2 EnsemblX41,914,346 - 41,929,591 (-)Ensembl
Rnor_6.0 EnsemblX45,244,038 - 45,259,492 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000080431   ⟹   ENSRNOP00000075719
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX45,799,812 - 45,807,022 (-)Ensembl
mRatBN7.2 EnsemblX41,921,420 - 41,928,630 (-)Ensembl
Rnor_6.0 EnsemblX45,178,446 - 45,187,149 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000114364   ⟹   ENSRNOP00000076847
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX45,792,738 - 45,807,983 (-)Ensembl
mRatBN7.2 EnsemblX41,914,346 - 41,929,591 (-)Ensembl
RefSeq Acc Id: NM_019125   ⟹   NP_061998
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X45,792,738 - 45,807,983 (-)NCBI
mRatBN7.2X41,914,346 - 41,929,591 (-)NCBI
Rnor_6.0X45,171,944 - 45,187,189 (-)NCBI
Rnor_5.0X45,466,157 - 45,481,633 (-)NCBI
RGSC_v3.4X63,581,742 - 63,597,497 (-)RGD
CeleraX42,568,559 - 42,583,804 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_061998 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA40805 (Get FASTA)   NCBI Sequence Viewer  
  AAH62035 (Get FASTA)   NCBI Sequence Viewer  
  AAQ67415 (Get FASTA)   NCBI Sequence Viewer  
  EDL96079 (Get FASTA)   NCBI Sequence Viewer  
  EDL96080 (Get FASTA)   NCBI Sequence Viewer  
  EDL96081 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000042730
GenBank Protein P15399 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_061998   ⟸   NM_019125
- Peptide Label: precursor
- UniProtKB: Q53Z30 (UniProtKB/Swiss-Prot),   P15399 (UniProtKB/Swiss-Prot),   A6IPT4 (UniProtKB/TrEMBL),   A0A8L2QLQ0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000075719   ⟸   ENSRNOT00000080431
Ensembl Acc Id: ENSRNOP00000042730   ⟸   ENSRNOT00000046768
Ensembl Acc Id: ENSRNOP00000076847   ⟸   ENSRNOT00000114364
Protein Domains
Lipocalin/cytosolic fatty-acid binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P15399-F1-model_v2 AlphaFold P15399 1-177 view protein structure

Transcriptome

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

Promoters
RGD ID:13701822
Promoter ID:EPDNEW_R12346
Type:single initiation site
Name:Pbsn_1
Description:probasin
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_6.0X45,187,186 - 45,187,246EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:708571 AgrOrtholog
BioCyc Gene G2FUF-2410 BioCyc
Ensembl Genes ENSRNOG00000003713 Ensembl, ENTREZGENE
  ENSRNOG00000061715 Ensembl
Ensembl Transcript ENSRNOT00000046768 ENTREZGENE
Gene3D-CATH 2.40.128.20 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:5623889 IMAGE-MGC_LOAD
InterPro Calycin UniProtKB/Swiss-Prot
  Lipocalin UniProtKB/Swiss-Prot
  Lipocalin_CS UniProtKB/Swiss-Prot
  Lipocln_cytosolic_FA-bd_dom UniProtKB/Swiss-Prot
  OBP-like UniProtKB/Swiss-Prot
KEGG Report rno:54193 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72482 IMAGE-MGC_LOAD
NCBI Gene 54193 ENTREZGENE
PANTHER PROBASIN UniProtKB/Swiss-Prot
  PTHR11430 UniProtKB/Swiss-Prot
Pfam Lipocalin UniProtKB/Swiss-Prot
PhenoGen Pbsn PhenoGen
PRINTS ODORANTBNDNG UniProtKB/Swiss-Prot
PROSITE LIPOCALIN UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000003713 RatGTEx
  ENSRNOG00000061715 RatGTEx
Superfamily-SCOP SSF50814 UniProtKB/Swiss-Prot
UniProt A0A8I5Y0V2_RAT UniProtKB/TrEMBL
  A0A8L2QLQ0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2URJ6_RAT UniProtKB/TrEMBL
  A6IPT2_RAT UniProtKB/TrEMBL
  A6IPT3_RAT UniProtKB/TrEMBL
  A6IPT4 ENTREZGENE, UniProtKB/TrEMBL
  P15399 ENTREZGENE, UniProtKB/Swiss-Prot
  Q53Z30 ENTREZGENE
UniProt Secondary Q53Z30 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Pbsn  probasin  LOC103689993  probasin  Data merged from RGD:9388391 737654 PROVISIONAL
2014-08-25 LOC103689993  probasin      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Pbsn  probasin  LOC54193    Symbol updated 1299863 APPROVED