Pabpc2 (poly(A) binding protein, cytoplasmic 2) - Rat Genome Database

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Gene: Pabpc2 (poly(A) binding protein, cytoplasmic 2) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Pabpc2
Name: poly(A) binding protein, cytoplasmic 2
RGD ID: 1310759
Description: Predicted to enable mRNA 3'-UTR binding activity; poly(A) binding activity; and poly(U) RNA binding activity. Predicted to be part of ribonucleoprotein complex. Predicted to be active in cytoplasmic stress granule; cytosol; and nucleus. Orthologous to human PABPC1 (poly(A) binding protein cytoplasmic 1); PARTICIPATES IN mRNA decay pathway; RNA degradation pathway; RNA transport pathway; INTERACTS WITH 4,4'-sulfonyldiphenol; bisphenol A; bisphenol F.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC291615; poly A binding protein, cytoplasmic 2
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81831,905,327 - 31,907,595 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1831,905,128 - 31,929,299 (+)EnsemblGRCr8
mRatBN7.21831,654,218 - 31,656,486 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1831,654,218 - 31,656,286 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1831,758,391 - 31,760,659 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01832,524,974 - 32,527,242 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01831,853,634 - 31,855,902 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01832,964,763 - 32,967,031 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1832,964,763 - 32,967,031 (+)Ensemblrn6Rnor6.0
Rnor_5.01832,641,871 - 32,644,139 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41832,756,352 - 32,758,491 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1831,284,741 - 31,287,009 (+)NCBICelera
RGSC_v3.11832,791,716 - 32,794,094 (+)NCBI
Cytogenetic Map18p11NCBI
JBrowse:




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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9732454  


Genomics

Variants

.
Variants in Pabpc2
2 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:52
Count of miRNA genes:49
Interacting mature miRNAs:50
Transcripts:ENSRNOT00000019467
Prediction methods:Microtar, Rnahybrid, Targetscan
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
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182507112683910656Rat
2301409Cm70Cardiac mass QTL 700.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)18706572852065728Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)182201556261600538Rat
1331798Bp224Blood pressure QTL 2243.53873arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
2301413Bp318Blood pressure QTL 3180.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182682218671822186Rat
61383Bp47Blood pressure QTL 4717.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)183152278376522783Rat
12904716Am21Aortic mass QTL 210.005aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)18706572852065728Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182349405785487725Rat
1331742Bp228Blood pressure QTL 2283.88752arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
12904714Cm131Cardiac mass QTL 1310.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)18706572852065728Rat
12904715Cm132Cardiac mass QTL 1320.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)18706572852065728Rat
1331776Bp225Blood pressure QTL 2252.829arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)183161050577371277Rat
6903345Bp349Blood pressure QTL 3493.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)18391722648917226Rat
12904668Bw188Body weight QTL 1880.03body mass (VT:0001259)body weight (CMO:0000012)182682218671822186Rat
2313082Bss85Bone structure and strength QTL 850.80.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)181522610142690662Rat
12904669Cm125Cardiac mass QTL 1250.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)182682218671822186Rat
12904670Cm126Cardiac mass QTL 1260.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)182682218671822186Rat
2312568Glom21Glomerulus QTL 2120.005kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)18546045542690191Rat
1331727Bp237Blood pressure QTL 2373.053arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050563968306Rat
6903349Bp351Blood pressure QTL 3513.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)18391722648917226Rat
631509Sald2Serum aldosterone level QTL 22.9blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)182641582171415821Rat
6903351Bp352Blood pressure QTL 3523.3arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)18391722648917226Rat
12904677Kidm72Kidney mass QTL 720.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)182682218671822186Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183164450879484311Rat
12904673Cm127Cardiac mass QTL 1270.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)182682218671822186Rat
12904675Am19Aortic mass QTL 190.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)182682218671822186Rat
1331774Bp226Blood pressure QTL 2264.41065arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
2325839Bp348Blood pressure QTL 3480.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)18144930869Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)181955353285493247Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181206648257066482Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181206648285493247Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183161050585493247Rat
61429Cia17Collagen induced arthritis QTL 174.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)183161050572538878Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18134566578Rat
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18448264849482648Rat
1331753Bp231Blood pressure QTL 2313.643arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18154490981Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181206648285493247Rat
11565454Kidm59Kidney mass QTL 590.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)18706572852065728Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181564228086134022Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134566578Rat
61375Bp41Blood pressure QTL 412.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)18430735449307354Rat

Markers in Region
Pabpc1  
Rat AssemblyChrPosition (strand)SourceJBrowse
RGSC_v3.41832,757,052 - 32,758,183UniSTSRGSC3.4
RGSC_v3.41832,757,257 - 32,757,659UniSTSRGSC3.4
RGSC_v3.4772,119,416 - 72,121,074UniSTSRGSC3.4
Celera1831,285,479 - 31,285,881UniSTS
Celera764,860,680 - 64,862,338UniSTS
Celera1831,285,274 - 31,286,405UniSTS
UniSTS:479186  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21831,655,237 - 31,655,843 (+)MAPPERmRatBN7.2
Rnor_6.01832,965,783 - 32,966,388NCBIRnor6.0
Rnor_5.01832,642,891 - 32,643,496UniSTSRnor5.0
RGSC_v3.41832,757,539 - 32,758,144UniSTSRGSC3.4
Celera1831,285,761 - 31,286,366UniSTS
Cytogenetic Map18p11UniSTS
Pabpc1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0775,560,910 - 75,562,568UniSTSRnor5.0
Rnor_5.01832,642,609 - 32,643,011UniSTSRnor5.0
RGSC_v3.41832,757,257 - 32,757,659UniSTSRGSC3.4
RGSC_v3.4772,119,416 - 72,121,074UniSTSRGSC3.4
Celera1831,285,479 - 31,285,881UniSTS
Celera764,860,680 - 64,862,338UniSTS
Cytogenetic Map7q22UniSTS
Cytogenetic Map18p11UniSTS
Pabpc1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01832,642,404 - 32,643,535UniSTSRnor5.0
RGSC_v3.41832,757,052 - 32,758,183UniSTSRGSC3.4
Celera1831,285,274 - 31,286,405UniSTS
Cytogenetic Map7q22UniSTS
Cytogenetic Map18p11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
3 6 4 27 27 29 10 20 10 1 62 35 17 10 28 19

Sequence


Ensembl Acc Id: ENSRNOT00000019467   ⟹   ENSRNOP00000019468
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1831,905,128 - 31,929,299 (+)Ensembl
mRatBN7.2 Ensembl1831,654,218 - 31,656,286 (+)Ensembl
Rnor_6.0 Ensembl1832,964,763 - 32,967,031 (+)Ensembl
RefSeq Acc Id: NM_001106151   ⟹   NP_001099621
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81831,905,327 - 31,907,595 (+)NCBI
mRatBN7.21831,654,218 - 31,656,486 (+)NCBI
Rnor_6.01832,964,763 - 32,967,031 (+)NCBI
Rnor_5.01832,641,871 - 32,644,139 (+)NCBI
RGSC_v3.41832,756,352 - 32,758,491 (+)RGD
Celera1831,284,741 - 31,287,009 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001099621 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL76463 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000019468.5
RefSeq Acc Id: NP_001099621   ⟸   NM_001106151
- UniProtKB: D4A233 (UniProtKB/TrEMBL),   A6J3I1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000019468   ⟸   ENSRNOT00000019467
Protein Domains
PABC   RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A233-F1-model_v2 AlphaFold D4A233 1-630 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:1310759 AgrOrtholog
BioCyc Gene G2FUF-7739 BioCyc
Ensembl Genes ENSRNOG00000014527 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019467.7 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
  c-terminal domain of poly(a) binding protein UniProtKB/TrEMBL
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  PABP-dom UniProtKB/TrEMBL
  PABP_1234 UniProtKB/TrEMBL
  PABP_HYD UniProtKB/TrEMBL
  PABP_RRM1 UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM2_I_PABPs UniProtKB/TrEMBL
  RRM_dom_euk UniProtKB/TrEMBL
  RRM_RNP1 UniProtKB/TrEMBL
KEGG Report rno:291615 UniProtKB/TrEMBL
NCBI Gene 291615 ENTREZGENE
PANTHER RNA BINDING PROTEIN UniProtKB/TrEMBL
Pfam PABP UniProtKB/TrEMBL
  RRM_1 UniProtKB/TrEMBL
PhenoGen Pabpc2 PhenoGen
PROSITE PABC UniProtKB/TrEMBL
  RRM UniProtKB/TrEMBL
RatGTEx ENSRNOG00000014527 RatGTEx
SMART PolyA UniProtKB/TrEMBL
  RRM UniProtKB/TrEMBL
  RRM_1 UniProtKB/TrEMBL
Superfamily-SCOP PABC (PABP) domain UniProtKB/TrEMBL
  SSF54928 UniProtKB/TrEMBL
UniProt A6J3I1 ENTREZGENE, UniProtKB/TrEMBL
  D4A233 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-12-15 Pabpc2  poly(A) binding protein, cytoplasmic 2  Pabpc2  poly A binding protein, cytoplasmic 2   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Pabpc2  poly A binding protein, cytoplasmic 2   Pabpc2_predicted  poly A binding protein, cytoplasmic 2 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Pabpc2_predicted  poly A binding protein, cytoplasmic 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED