Ppp2r3b (protein phosphatase 2, regulatory subunit B'', beta) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Ppp2r3b (protein phosphatase 2, regulatory subunit B'', beta) Rattus norvegicus
Analyze
Symbol: Ppp2r3b
Name: protein phosphatase 2, regulatory subunit B'', beta
RGD ID: 1588134
Description: Predicted to enable calcium-dependent protein serine/threonine phosphatase activity; chromatin binding activity; and protein phosphatase regulator activity. Predicted to act upstream of or within negative regulation of G1/S transition of mitotic cell cycle and negative regulation of cell population proliferation. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of protein phosphatase type 2A complex. Orthologous to human PPP2R3B (protein phosphatase 2 regulatory subunit B''beta); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC682033; LOC682033; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta; similar to Protein phosphatase 2A, 59 kDa regulatory subunit B (PP2A PR59) (PP2A B-PR59); uncharacterized protein LOC682033
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr814103,496 - 110,739 (-)NCBIGRCr8
mRatBN7.21488,507 - 95,750 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1489,176 - 95,750 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14107,110 - 113,684 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0141,408,885 - 1,415,459 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.014105,557 - 112,131 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0141,469,748 - 1,476,353 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl141,469,748 - 1,476,355 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0141,472,151 - 1,478,799 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera14669,172 - 675,704 (+)NCBICelera
Cytogenetic Map14p22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease 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. 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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9927208   PMID:12477932   PMID:15522233   PMID:17537547   PMID:27998980  


Genomics

Comparative Map Data
Ppp2r3b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr814103,496 - 110,739 (-)NCBIGRCr8
mRatBN7.21488,507 - 95,750 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1489,176 - 95,750 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14107,110 - 113,684 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0141,408,885 - 1,415,459 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.014105,557 - 112,131 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0141,469,748 - 1,476,353 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl141,469,748 - 1,476,355 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0141,472,151 - 1,478,799 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera14669,172 - 675,704 (+)NCBICelera
Cytogenetic Map14p22NCBI
PPP2R3B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38Y333,933 - 386,907 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38X333,933 - 386,907 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX333,933 - 386,955 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p14 EnsemblY333,933 - 386,955 (-)EnsemblGRCh38hg38GRCh38
GRCh37X294,668 - 347,642 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh37Y244,668 - 297,642 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36Y214,970 - 267,627 (-)NCBINCBI36Build 36hg18NCBI36
Build 36X214,970 - 267,627 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX734,571 - 788,070 (+)NCBICelera
Cytogenetic MapX;YNCBI
CHM1_1X278,231 - 331,243 (-)NCBICHM1_1
T2T-CHM13v2.0Y168,543 - 224,805 (-)NCBIT2T-CHM13v2.0
T2T-CHM13v2.0X164,977 - 218,172 (-)NCBIT2T-CHM13v2.0
Ppp2r3d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399124,195,310 - 124,204,755 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9124,195,827 - 124,204,759 (+)EnsemblGRCm39 Ensembl
GRCm389124,474,346 - 124,476,862 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9124,422,622 - 124,476,898 (-)EnsemblGRCm38mm10GRCm38
Celera9124,641,486 - 124,651,054 (-)NCBICelera
Cytogenetic Map9F4NCBI
Ppp2r3b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955499596,146 - 606,079 (-)NCBIChiLan1.0ChiLan1.0
LOC100970249
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21879,608,127 - 79,646,443 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11685,520,712 - 85,559,067 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01650,458,178 - 50,497,955 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PPP2R3B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X238,447 - 276,842 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX238,928 - 276,558 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX135,695 - 172,424 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X102,672 - 138,955 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX102,674 - 138,287 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X95,412 - 132,639 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X107,341 - 147,178 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X106,415 - 145,268 (-)NCBIUU_Cfam_GSD_1.0
Ppp2r3b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404953168,964 - 194,385 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366444,187,961 - 4,207,779 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PPP2R3B
(Sus scrofa - pig)
No map positions available.
PPP2R3B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_02366605683,666 - 176,793 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ppp2r3b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624834282,347 - 290,389 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ppp2r3b
14 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:112
Count of miRNA genes:98
Interacting mature miRNAs:102
Transcripts:ENSRNOT00000071648
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat

Markers in Region
BE102332  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21489,245 - 89,409 (-)MAPPERmRatBN7.2
Rnor_6.0141,476,128 - 1,476,291NCBIRnor6.0
Rnor_5.0141,478,574 - 1,478,737UniSTSRnor5.0
Celera14675,471 - 675,634UniSTS
RH135100  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21497,545 - 97,731 (-)MAPPERmRatBN7.2
Rnor_6.0141,467,767 - 1,467,952NCBIRnor6.0
Rnor_5.0141,470,170 - 1,470,355UniSTSRnor5.0
Celera14667,191 - 667,376UniSTS
BF390662  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21497,124 - 97,287 (-)MAPPERmRatBN7.2
Rnor_6.0141,468,211 - 1,468,373NCBIRnor6.0
Rnor_5.0141,470,614 - 1,470,776UniSTSRnor5.0
Celera14667,635 - 667,797UniSTS


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 circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 22 20 14 9 14 51 18 36 1
Low 1 21 37 27 10 27 8 11 23 17 5 10 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000071648   ⟹   ENSRNOP00000065433
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1489,176 - 95,750 (-)Ensembl
Rnor_6.0 Ensembl141,469,748 - 1,476,355 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000095655   ⟹   ENSRNOP00000085760
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1489,176 - 95,750 (-)Ensembl
RefSeq Acc Id: NM_001139492   ⟹   NP_001132964
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814103,496 - 110,739 (-)NCBI
mRatBN7.21488,507 - 95,750 (-)NCBI
Rnor_6.0141,469,748 - 1,476,353 (+)NCBI
Rnor_5.0141,472,151 - 1,478,799 (+)NCBI
Celera14669,172 - 675,704 (+)RGD
Sequence:
RefSeq Acc Id: XM_039092446   ⟹   XP_038948374
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814104,165 - 110,479 (-)NCBI
mRatBN7.21488,507 - 95,547 (-)NCBI
RefSeq Acc Id: XM_039092449   ⟹   XP_038948377
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814104,165 - 110,479 (-)NCBI
mRatBN7.21488,507 - 95,547 (-)NCBI
RefSeq Acc Id: XM_063273623   ⟹   XP_063129693
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814106,041 - 110,479 (-)NCBI
RefSeq Acc Id: XM_063273624   ⟹   XP_063129694
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814106,113 - 110,479 (-)NCBI
RefSeq Acc Id: XR_010057417
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814105,647 - 110,479 (-)NCBI
RefSeq Acc Id: NP_001132964   ⟸   NM_001139492
- UniProtKB: B1WBU2 (UniProtKB/TrEMBL),   A0A8I6A0V6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000065433   ⟸   ENSRNOT00000071648
RefSeq Acc Id: XP_038948377   ⟸   XM_039092449
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A0V6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038948374   ⟸   XM_039092446
- Peptide Label: isoform X1
- UniProtKB: A0A8I6A0V6 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000085760   ⟸   ENSRNOT00000095655
RefSeq Acc Id: XP_063129693   ⟸   XM_063273623
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063129694   ⟸   XM_063273624
- Peptide Label: isoform X4
Protein Domains
EF-hand

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B1WBU2-F1-model_v2 AlphaFold B1WBU2 1-552 view protein structure

Transcriptome

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

Promoters
RGD ID:13699137
Promoter ID:EPDNEW_R9662
Type:initiation region
Name:Ppp2r3b_1
Description:protein phosphatase 2, regulatory subunit B'', beta
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_6.0141,469,779 - 1,469,839EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1588134 AgrOrtholog
BioCyc Gene G2FUF-16720 BioCyc
Ensembl Genes ENSRNOG00000049270 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000071648 ENTREZGENE
  ENSRNOT00000071648.2 UniProtKB/TrEMBL
  ENSRNOT00000095655.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.238.220 UniProtKB/TrEMBL
  1.10.238.230 UniProtKB/TrEMBL
  EF-hand UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7135877 IMAGE-MGC_LOAD
InterPro EF-hand-like_dom UniProtKB/TrEMBL
  EF-hand_13 UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_Ca_bd UniProtKB/TrEMBL
  P2R3A_B_D_EF-hand UniProtKB/TrEMBL
KEGG Report rno:682033 UniProtKB/TrEMBL
MGC_CLONE MGC:187468 IMAGE-MGC_LOAD
NCBI Gene 682033 ENTREZGENE
PANTHER PHOSPHATASE 2A REGULATORY SUBUNIT-RELATED UniProtKB/TrEMBL
  SERINE/THREONINE-PROTEIN PHOSPHATASE 2A REGULATORY SUBUNIT B'' SUBUNIT BETA UniProtKB/TrEMBL
Pfam EF-hand_13 UniProtKB/TrEMBL
  EF_hand_5 UniProtKB/TrEMBL
  P2R3B_EF-hand UniProtKB/TrEMBL
PhenoGen Ppp2r3b PhenoGen
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000049270 RatGTEx
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
UniProt A0A8I6A0V6 ENTREZGENE, UniProtKB/TrEMBL
  B1WBU2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-13 Ppp2r3b  protein phosphatase 2, regulatory subunit B'', beta  LOC682033  similar to Protein phosphatase 2A, 59 kDa regulatory subunit B (PP2A PR59) (PP2A B-PR59)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC682033  similar to Protein phosphatase 2A, 59 kDa regulatory subunit B (PP2A PR59) (PP2A B-PR59)      Symbol and Name status set to provisional 70820 PROVISIONAL