Polr3k (RNA polymerase III subunit K) - Rat Genome Database

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Gene: Polr3k (RNA polymerase III subunit K) Rattus norvegicus
Analyze
Symbol: Polr3k
Name: RNA polymerase III subunit K
RGD ID: 1587294
Description: Predicted to enable zinc ion binding activity. Predicted to contribute to RNA polymerase III activity. Predicted to be involved in termination of RNA polymerase III transcription. Predicted to be located in nucleolus. Predicted to be part of RNA polymerase III complex. Human ortholog(s) of this gene implicated in hypomyelinating leukodystrophy 21. Orthologous to human POLR3K (RNA polymerase III subunit K); PARTICIPATES IN RNA polymerase III transcription pathway; purine metabolic pathway; pyrimidine metabolic pathway; INTERACTS WITH 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: DNA-directed RNA polymerase III subunit RPC10; estrous-specific protein, 250 kDa; MGC109430; polymerase (RNA) III (DNA directed) polypeptide K; polymerase (RNA) III (DNA directed) polypeptide K, 12.3 kDa; polymerase (RNA) III subunit K
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
GRCr83189,360,349 - 189,364,546 (+)NCBIGRCr8
mRatBN7.23168,982,846 - 168,987,043 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,982,812 - 168,987,040 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3173,359,765 - 173,363,952 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03182,318,868 - 182,323,055 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03178,983,764 - 178,987,961 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03177,374,812 - 177,379,009 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3177,374,812 - 177,379,008 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03181,083,123 - 181,087,320 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43171,017,930 - 171,022,127 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3163,603,612 - 163,607,809 (-)NCBICelera
Cytogenetic Map3q43NCBI
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

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Cell growth- and differentiation-dependent regulation of RNA polymerase III transcription. Dumay-Odelot H, etal., Cell Cycle. 2010 Sep 15;9(18):3687-99. Epub 2010 Sep 1.
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. Characterization of human RNA polymerase III identifies orthologues for Saccharomyces cerevisiae RNA polymerase III subunits. Hu P, etal., Mol Cell Biol. 2002 Nov;22(22):8044-55.
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:8980114   PMID:12477932  


Genomics

Comparative Map Data
Polr3k
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83189,360,349 - 189,364,546 (+)NCBIGRCr8
mRatBN7.23168,982,846 - 168,987,043 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,982,812 - 168,987,040 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3173,359,765 - 173,363,952 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03182,318,868 - 182,323,055 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03178,983,764 - 178,987,961 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03177,374,812 - 177,379,009 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3177,374,812 - 177,379,008 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03181,083,123 - 181,087,320 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43171,017,930 - 171,022,127 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3163,603,612 - 163,607,809 (-)NCBICelera
Cytogenetic Map3q43NCBI
POLR3K
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381646,407 - 53,608 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1646,407 - 53,608 (-)EnsemblGRCh38hg38GRCh38
GRCh371696,407 - 103,608 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361637,000 - 43,625 (-)NCBINCBI36Build 36hg18NCBI36
Build 341636,999 - 43,625NCBI
Celera16298,898 - 305,526 (-)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef1615,438 - 22,023 (-)NCBIHuRef
CHM1_11696,967 - 103,568 (-)NCBICHM1_1
T2T-CHM13v2.01639,992 - 47,144 (-)NCBIT2T-CHM13v2.0
Polr3k
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392181,506,153 - 181,512,623 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2181,506,130 - 181,512,623 (+)EnsemblGRCm39 Ensembl
GRCm382181,864,360 - 181,870,830 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2181,864,337 - 181,870,830 (+)EnsemblGRCm38mm10GRCm38
MGSCv372181,599,065 - 181,605,535 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362181,793,852 - 181,799,571 (+)NCBIMGSCv36mm8
Celera2185,940,194 - 185,946,662 (+)NCBICelera
Cytogenetic Map2H4NCBI
cM Map2103.82NCBI
Polr3k
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544217,101,585 - 17,106,689 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544217,101,585 - 17,106,689 (+)NCBIChiLan1.0ChiLan1.0
POLR3K
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v218262,237 - 268,920 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1164,054,323 - 4,060,963 (-)NCBINHGRI_mPanPan1
PanPan1.11637,772 - 44,598 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1637,772 - 44,598 (-)Ensemblpanpan1.1panPan2
POLR3K
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1640,417,020 - 40,420,030 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl640,417,051 - 40,419,917 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha641,680,034 - 41,683,047 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0640,760,045 - 40,763,059 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl640,760,079 - 40,762,946 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1640,447,597 - 40,450,614 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0640,408,524 - 40,411,541 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0640,887,713 - 40,890,726 (+)NCBIUU_Cfam_GSD_1.0
Polr3k
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344112,715,594 - 112,722,052 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936501813,457 - 819,883 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936501813,452 - 819,912 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
POLR3K
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl341,571,475 - 41,574,987 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1341,571,709 - 41,575,044 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2340,861,850 - 40,865,114 (-)NCBISscrofa10.2Sscrofa10.2susScr3
POLR3K
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.152,568 - 10,259 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl550 - 10,259 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606831,214,941 - 31,222,745 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Polr3k
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624913929,627 - 935,346 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624913928,871 - 934,876 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Polr3k
9 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:78
Count of miRNA genes:68
Interacting mature miRNAs:73
Transcripts:ENSRNOT00000024096
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
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3161192952169034231Rat

Markers in Region
RH127422  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23168,986,546 - 168,986,732 (+)MAPPERmRatBN7.2
Rnor_6.03177,378,513 - 177,378,698NCBIRnor6.0
Rnor_5.03181,086,824 - 181,087,009UniSTSRnor5.0
RGSC_v3.43171,021,631 - 171,021,816UniSTSRGSC3.4
Celera3163,603,923 - 163,604,108UniSTS
RH 3.4 Map31561.7UniSTS
Cytogenetic Map3q43UniSTS


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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024096   ⟹   ENSRNOP00000024096
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,982,830 - 168,987,039 (+)Ensembl
Rnor_6.0 Ensembl3177,374,812 - 177,379,008 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113840   ⟹   ENSRNOP00000080273
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,982,812 - 168,987,040 (+)Ensembl
RefSeq Acc Id: NM_001014259   ⟹   NP_001014281
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83189,360,349 - 189,364,546 (+)NCBI
mRatBN7.23168,982,846 - 168,987,043 (+)NCBI
Rnor_6.03177,374,812 - 177,379,009 (+)NCBI
Rnor_5.03181,083,123 - 181,087,320 (+)NCBI
RGSC_v3.43171,017,930 - 171,022,127 (+)RGD
Celera3163,603,612 - 163,607,809 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001014281 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC13319 (Get FASTA)   NCBI Sequence Viewer  
  AAH89990 (Get FASTA)   NCBI Sequence Viewer  
  EDL88664 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000024096.4
  ENSRNOP00000080273
  ENSRNOP00000080273.1
Reference Protein Sequences
RefSeq Acc Id: NP_001014281   ⟸   NM_001014259
- UniProtKB: Q5FVH1 (UniProtKB/TrEMBL),   A0A8I5ZSQ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000024096   ⟸   ENSRNOT00000024096
RefSeq Acc Id: ENSRNOP00000080273   ⟸   ENSRNOT00000113840
Protein Domains
TFIIS-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5FVH1-F1-model_v2 AlphaFold Q5FVH1 1-108 view protein structure

Transcriptome

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

Promoters
RGD ID:13692768
Promoter ID:EPDNEW_R3291
Type:initiation region
Name:Polr3k_1
Description:RNA polymerase III subunit K
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_6.03177,374,778 - 177,374,838EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1587294 AgrOrtholog
BioCyc Gene G2FUF-46255 BioCyc
Ensembl Genes ENSRNOG00000017843 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024096.7 UniProtKB/TrEMBL
  ENSRNOT00000113840 ENTREZGENE
  ENSRNOT00000113840.1 UniProtKB/TrEMBL
Gene3D-CATH 2.20.25.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7319381 IMAGE-MGC_LOAD
InterPro DNA-dir_RNA_pol-M_15_CS UniProtKB/TrEMBL
  DNA-dir_RNA_pol_M/15kDasu UniProtKB/TrEMBL
  DNA-dir_RNApol_C11 UniProtKB/TrEMBL
  Zn_ribbon_RPC11_C UniProtKB/TrEMBL
  Znf_TFIIS UniProtKB/TrEMBL
KEGG Report rno:366277 UniProtKB/TrEMBL
MGC_CLONE MGC:109430 IMAGE-MGC_LOAD
NCBI Gene 366277 ENTREZGENE
PANTHER DNA-DIRECTED RNA POLYMERASE III SUBUNIT RPC10 UniProtKB/TrEMBL
  PTHR11239 UniProtKB/TrEMBL
Pfam RNA_POL_M_15KD UniProtKB/TrEMBL
  TFIIS_C UniProtKB/TrEMBL
PhenoGen Polr3k PhenoGen
PIRSF RNApol_RpoM UniProtKB/TrEMBL
PROSITE RNA_POL_M_15KD UniProtKB/TrEMBL
  ZF_TFIIS_1 UniProtKB/TrEMBL
  ZF_TFIIS_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000017843 RatGTEx
SMART RPOL9 UniProtKB/TrEMBL
  ZnF_C2C2 UniProtKB/TrEMBL
Superfamily-SCOP Zinc beta-ribbon UniProtKB/TrEMBL
UniProt A0A8I5ZSQ8 ENTREZGENE, UniProtKB/TrEMBL
  F7EUV2_RAT UniProtKB/TrEMBL
  Q5FVH1 ENTREZGENE, UniProtKB/TrEMBL
  Q62961_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-21 Polr3k  RNA polymerase III subunit K  Polr3k  polymerase (RNA) III subunit K  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-03-16 Polr3k  polymerase (RNA) III subunit K  Polr3k  polymerase (RNA) III (DNA directed) polypeptide K  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-10-22 Polr3k  polymerase (RNA) III (DNA directed) polypeptide K  Polr3k  polymerase (RNA) III (DNA directed) polypeptide K, 12.3 kDa  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-24 Polr3k  polymerase (RNA) III (DNA directed) polypeptide K, 12.3 kDa  Polr3k  polymerase (RNA) III (DNA directed) polypeptide K  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-17 Polr3k  polymerase (RNA) III (DNA directed) polypeptide K  LOC246270  estrous-specific protein, 250 kDa  Data merged from RGD:708426 1643240 APPROVED
2006-11-19 Polr3k  polymerase (RNA) III (DNA directed) polypeptide K      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-09-30 LOC246270        Symbol and Name status set to provisional 70820 PROVISIONAL