Papolg (poly(A) polymerase gamma) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Papolg (poly(A) polymerase gamma) Rattus norvegicus
Analyze
Symbol: Papolg
Name: poly(A) polymerase gamma
RGD ID: 1310337
Description: Predicted to enable metal ion binding activity and poly(A) RNA polymerase activity. Predicted to be involved in mRNA polyadenylation. Predicted to be located in cytosol and nuclear body. Predicted to be active in nucleus. Orthologous to human PAPOLG (poly(A) polymerase gamma); PARTICIPATES IN 3'-end pre-mRNA processing pathway; mRNA decay pathway; INTERACTS WITH atrazine; bisphenol A; C60 fullerene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC305586
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
GRCr814102,028,842 - 102,062,155 (-)NCBIGRCr8
mRatBN7.21497,827,712 - 97,861,024 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1497,827,712 - 97,861,024 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14102,153,429 - 102,186,565 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.014103,397,660 - 103,430,794 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01499,869,339 - 99,902,473 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.014108,624,359 - 108,658,371 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14108,624,359 - 108,658,371 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014108,346,030 - 108,380,042 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414104,800,058 - 104,833,509 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.114104,819,267 - 104,852,722 (-)NCBI
Celera1496,796,350 - 96,827,229 (-)NCBICelera
Cytogenetic Map14q22NCBI
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
cytosol  (IEA,ISO)
nuclear body  (IEA,ISO)
nucleoplasm  (ISO)
nucleus  (IBA,ISO)

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. Means to an end: mechanisms of alternative polyadenylation of messenger RNA precursors. Gruber AR, etal., Wiley Interdiscip Rev RNA. 2014 Mar-Apr;5(2):183-96. doi: 10.1002/wrna.1206. Epub 2013 Nov 14.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:11287430   PMID:11463842   PMID:19946888   PMID:24076191  


Genomics

Comparative Map Data
Papolg
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr814102,028,842 - 102,062,155 (-)NCBIGRCr8
mRatBN7.21497,827,712 - 97,861,024 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1497,827,712 - 97,861,024 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14102,153,429 - 102,186,565 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.014103,397,660 - 103,430,794 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01499,869,339 - 99,902,473 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.014108,624,359 - 108,658,371 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14108,624,359 - 108,658,371 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014108,346,030 - 108,380,042 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414104,800,058 - 104,833,509 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.114104,819,267 - 104,852,722 (-)NCBI
Celera1496,796,350 - 96,827,229 (-)NCBICelera
Cytogenetic Map14q22NCBI
PAPOLG
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38260,756,268 - 60,802,086 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl260,756,253 - 60,802,086 (+)EnsemblGRCh38hg38GRCh38
GRCh37260,983,403 - 61,029,221 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36260,836,887 - 60,879,602 (+)NCBINCBI36Build 36hg18NCBI36
Build 34260,895,033 - 60,937,747NCBI
Celera260,826,967 - 60,872,820 (+)NCBICelera
Cytogenetic Map2p16.1NCBI
HuRef260,725,544 - 60,771,413 (+)NCBIHuRef
CHM1_1260,913,785 - 60,959,664 (+)NCBICHM1_1
T2T-CHM13v2.0260,762,056 - 60,807,916 (+)NCBIT2T-CHM13v2.0
Papolg
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391123,810,145 - 23,845,292 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1123,812,646 - 23,845,253 (-)EnsemblGRCm39 Ensembl
GRCm381123,860,145 - 23,895,293 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1123,862,646 - 23,895,253 (-)EnsemblGRCm38mm10GRCm38
MGSCv371123,762,646 - 23,795,270 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361123,762,665 - 23,795,253 (-)NCBIMGSCv36mm8
Celera1125,984,007 - 26,016,631 (-)NCBICelera
Cytogenetic Map11A3.2NCBI
cM Map1114.37NCBI
Papolg
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542423,003,107 - 23,034,412 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542423,005,942 - 23,034,360 (-)NCBIChiLan1.0ChiLan1.0
PAPOLG
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21265,571,229 - 65,622,291 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A65,583,940 - 65,626,242 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A60,846,593 - 60,892,462 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A61,988,572 - 62,030,291 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A61,988,572 - 62,030,291 (+)Ensemblpanpan1.1panPan2
PAPOLG
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11060,879,161 - 60,910,417 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1060,879,037 - 60,907,498 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1060,767,357 - 60,797,232 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01061,885,805 - 61,915,710 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1061,885,804 - 61,917,460 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11061,585,901 - 61,615,753 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01061,873,384 - 61,903,454 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01062,165,588 - 62,195,664 (+)NCBIUU_Cfam_GSD_1.0
Papolg
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629222,250,508 - 22,286,097 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364916,285,206 - 6,322,668 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364916,285,209 - 6,320,646 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PAPOLG
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl380,986,402 - 81,025,293 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1380,986,395 - 81,025,369 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2385,081,488 - 85,116,907 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PAPOLG
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11446,193,350 - 46,237,078 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1446,189,698 - 46,237,059 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604565,563,753 - 65,610,061 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Papolg
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248331,133,462 - 1,159,684 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248331,134,200 - 1,163,341 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Papolg
131 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:169
Count of miRNA genes:126
Interacting mature miRNAs:148
Transcripts:ENSRNOT00000008919
Prediction methods:Miranda, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1470053989104886043Rat

Markers in Region
RH138471  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21497,828,708 - 97,828,850 (+)MAPPERmRatBN7.2
Rnor_6.014108,625,355 - 108,625,496NCBIRnor6.0
Rnor_5.014108,347,026 - 108,347,167UniSTSRnor5.0
RGSC_v3.414104,801,054 - 104,801,195UniSTSRGSC3.4
Celera1496,797,346 - 96,797,487UniSTS
RH 3.4 Map14784.1UniSTS
Cytogenetic Map14q22UniSTS


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 8 16 4 19 4 74 22 38 11
Low 1 35 41 37 37 8 11 13 3 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000008919   ⟹   ENSRNOP00000008919
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1497,827,712 - 97,861,024 (-)Ensembl
Rnor_6.0 Ensembl14108,624,359 - 108,658,371 (-)Ensembl
RefSeq Acc Id: NM_001107244   ⟹   NP_001100714
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814102,028,842 - 102,062,155 (-)NCBI
mRatBN7.21497,827,712 - 97,861,024 (-)NCBI
Rnor_6.014108,624,359 - 108,658,371 (-)NCBI
Rnor_5.014108,346,030 - 108,380,042 (-)NCBI
RGSC_v3.414104,800,058 - 104,833,509 (-)RGD
Celera1496,796,350 - 96,827,229 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100714 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL97997 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000008919
  ENSRNOP00000008919.5
Reference Protein Sequences
RefSeq Acc Id: NP_001100714   ⟸   NM_001107244
- UniProtKB: D3ZAN6 (UniProtKB/TrEMBL),   A6JQ80 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000008919   ⟸   ENSRNOT00000008919
Protein Domains
Poly(A) polymerase central   Poly(A) polymerase nucleotidyltransferase   Poly(A) polymerase RNA-binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZAN6-F1-model_v2 AlphaFold D3ZAN6 1-739 view protein structure

Transcriptome

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

Promoters
RGD ID:13699525
Promoter ID:EPDNEW_R10049
Type:multiple initiation site
Name:Papolg_1
Description:poly polymerase gamma
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_6.014108,658,348 - 108,658,408EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310337 AgrOrtholog
BioCyc Gene G2FUF-14757 BioCyc
Ensembl Genes ENSRNOG00000006261 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008919 ENTREZGENE
  ENSRNOT00000008919.6 UniProtKB/TrEMBL
Gene3D-CATH 1.10.1410.10 UniProtKB/TrEMBL
  3.30.460.10 UniProtKB/TrEMBL
  Poly(A) polymerase predicted RNA binding domain UniProtKB/TrEMBL
InterPro NT_sf UniProtKB/TrEMBL
  NuclTrfase_I_C UniProtKB/TrEMBL
  PolA_pol_cen_dom UniProtKB/TrEMBL
  PolA_pol_NTPase UniProtKB/TrEMBL
  PolA_pol_RNA-bd_dom UniProtKB/TrEMBL
KEGG Report rno:305586 UniProtKB/TrEMBL
NCBI Gene 305586 ENTREZGENE
PANTHER POLY A POLYMERASE UniProtKB/TrEMBL
  POLY(A) POLYMERASE GAMMA UniProtKB/TrEMBL
Pfam PAP_central UniProtKB/TrEMBL
  PAP_NTPase UniProtKB/TrEMBL
  PAP_RNA-bind UniProtKB/TrEMBL
PhenoGen Papolg PhenoGen
PROSITE PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000006261 RatGTEx
Superfamily-SCOP PAP/OAS1 substrate-binding domain UniProtKB/TrEMBL
  PAP_C UniProtKB/TrEMBL
  SSF81301 UniProtKB/TrEMBL
UniProt A6JQ80 ENTREZGENE, UniProtKB/TrEMBL
  D3ZAN6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Papolg  poly(A) polymerase gamma   Papolg_predicted  poly(A) polymerase gamma (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Papolg_predicted  poly(A) polymerase gamma (predicted)      Symbol and Name status set to approved 70820 APPROVED