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Gene: Polr1a (RNA polymerase I subunit A) Rattus norvegicus

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Symbol:

Polr1a

Name:

RNA polymerase I subunit A

RGD ID:

620824

Description:

Contributes to DNA-directed RNA polymerase activity. Involved in rRNA transcription. Part of RNA polymerase I complex. Human ortholog(s) of this gene implicated in acrofacial dysostosis Cincinnati type and hypomyelinating leukodystrophy. Orthologous to human POLR1A (RNA polymerase I subunit A); PARTICIPATES IN nucleotide excision repair pathway; RNA polymerase I transcription pathway; purine metabolic pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

A194; DNA-directed RNA polymerase I A; DNA-directed RNA polymerase I largest subunit; DNA-directed RNA polymerase I subunit A; DNA-directed RNA polymerase I subunit RPA1; polymerase (RNA) I polypeptide A; polymerase (RNA) I subunit A; RNA polymerase 1-4; RNA polymerase I (194 kDa subunit); RNA polymerase I 194 kDa subunit; RNA polymerase I subunit A1; Rpa1; RPA194; Rpo1-4

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	POLR1A (RNA polymerase I subunit A)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Polr1a (polymerase (RNA) I polypeptide A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Polr1a (RNA polymerase I subunit A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	POLR1A (RNA polymerase I subunit A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	POLR1A (RNA polymerase I subunit A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Polr1a (RNA polymerase I subunit A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	POLR1A (RNA polymerase I subunit A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	POLR1A (RNA polymerase I subunit A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Polr1a (RNA polymerase I subunit A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Polr1a (RNA polymerase I subunit A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Polr1a (polymerase (RNA) I polypeptide A)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	POLR1A (RNA polymerase I subunit A)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	polr1a (RNA polymerase I subunit A)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	rpoa-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	rpoa-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	RPA190	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	RPA190	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	RpI1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	RpI1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	polr1a	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	polr1a	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	105,508,305 - 105,572,272 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	4	105,508,248 - 105,574,036 (+)	Ensembl				GRCr8
mRatBN7.2	4	103,950,051 - 104,014,022 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	103,950,051 - 104,014,020 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	4	109,329,917 - 109,393,831 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	105,105,033 - 105,168,947 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	103,719,955 - 103,783,923 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	99,822,964 - 99,903,969 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	99,823,252 - 99,887,132 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	4	164,601,148 - 164,665,022 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	4	105,187,426 - 105,251,385 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	4	93,106,344 - 93,170,325 (+)	NCBI		Celera
RGSC_v3.1	4	105,431,906 - 105,495,866 (+)	NCBI
Cytogenetic Map	4	q32	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

acrofacial dysostosis Cincinnati type (ISO)

Desbuquois dysplasia (ISO)

genetic disease (ISO)

Hypomyelinating Leukodystrophy 27 (ISO)

NESCAV syndrome (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene (ISO)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2,4,4'-trichlorobiphenyl (ISO)

2,4-dinitrotoluene (EXP)

4,4'-sulfonyldiphenol (ISO)

acrylamide (EXP)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

amphetamine (EXP)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP,ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

caffeine (ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

chlorpyrifos (ISO)

choline (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

dibutyl phthalate (ISO)

dicrotophos (ISO)

dioxygen (ISO)

doxorubicin (ISO)

ethanol (ISO)

fenthion (ISO)

fipronil (ISO)

flutamide (EXP)

folic acid (ISO)

FR900359 (ISO)

fulvestrant (ISO)

GSK-J4 (ISO)

ivermectin (ISO)

L-methionine (ISO)

methapyrilene (ISO)

okadaic acid (ISO)

ozone (ISO)

paracetamol (EXP,ISO)

PCB138 (ISO)

perfluorohexanesulfonic acid (ISO)

pregnenolone 16alpha-carbonitrile (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

succimer (ISO)

tetrachloromethane (EXP)

thioacetamide (EXP)

thiram (ISO)

titanium dioxide (ISO)

triphenyl phosphate (ISO)

triptonide (ISO)

tungsten (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

DNA-templated transcription (IEA)

negative regulation of protein localization to nucleolus (IEA,ISO)

nucleolar large rRNA transcription by RNA polymerase I (IBA)

rRNA transcription (IDA)

transcription by RNA polymerase I (IEA,ISO)

transcription elongation by RNA polymerase I (IEA,ISO)

Cellular Component

chromatin (IEA,ISO)

chromosome (IEA,ISO,ISS)

DNA-directed RNA polymerase complex (IEA)

fibrillar center (IEA,ISO)

nucleolus (IEA)

nucleus (IEA,ISO)

RNA polymerase I complex (IBA,IDA,IEA,ISO)

Molecular Function

5'-3' RNA polymerase activity (IEA)

chromatin binding (IEA,ISO,ISS)

DNA binding (IEA)

DNA-directed RNA polymerase activity (IBA,IDA,IEA,ISO)

DNA/RNA hybrid binding (IEA,ISO)

magnesium ion binding (IEA,ISO)

metal ion binding (IEA)

nucleotidyltransferase activity (IEA)

protein binding (ISO)

transferase activity (IEA)

zinc ion binding (IEA,ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

nucleotide excision repair pathway (ISO)

purine metabolic pathway (IEA)

pyrimidine metabolic pathway (IEA)

RNA polymerase I transcription pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	A kinetic framework for a mammalian RNA polymerase in vivo.	Dundr M, etal., Science 2002 Nov 22;298(5598):1623-6.
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 GOA human gene data--August 2006	GOA data from the GO Consortium
4.	Affinity purification of mammalian RNA polymerase I. Identification of an associated kinase.	Hannan RD, etal., J Biol Chem. 1998 Jan 9;273(2):1257-67.
5.	KEGG: Kyoto Encyclopedia of Genes and Genomes	KEGG
6.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
7.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
8.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
9.	SMPDB Annotation Import Pipeline	Pipeline to import SMPDB annotations from SMPDB into RGD
10.	GOA pipeline	RGD automated data pipeline
11.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
13.	Comprehensive gene review and curation	RGD comprehensive gene curation
14.	RNA polymerase I activity is regulated at multiple steps in the transcription cycle: recent insights into factors that influence transcription elongation.	Schneider DA Gene. 2012 Feb 10;493(2):176-84. doi: 10.1016/j.gene.2011.08.006. Epub 2011 Aug 26.
15.	Conservation between the RNA polymerase I, II, and III transcription initiation machineries.	Vannini A and Cramer P, Mol Cell. 2012 Feb 24;45(4):439-46. doi: 10.1016/j.molcel.2012.01.023.

Additional References at PubMed

PMID:9236775	PMID:15226435	PMID:23782956	PMID:26089203

Genomics

Comparative Map Data

Polr1a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	105,508,305 - 105,572,272 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	4	105,508,248 - 105,574,036 (+)	Ensembl				GRCr8
mRatBN7.2	4	103,950,051 - 104,014,022 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	103,950,051 - 104,014,020 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	4	109,329,917 - 109,393,831 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	105,105,033 - 105,168,947 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	103,719,955 - 103,783,923 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	99,822,964 - 99,903,969 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	99,823,252 - 99,887,132 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	4	164,601,148 - 164,665,022 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	4	105,187,426 - 105,251,385 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	4	93,106,344 - 93,170,325 (+)	NCBI		Celera
RGSC_v3.1	4	105,431,906 - 105,495,866 (+)	NCBI
Cytogenetic Map	4	q32	NCBI

POLR1A
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	86,020,216 - 86,105,886 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	86,020,216 - 86,106,155 (-)	Ensembl			hg38	GRCh38
GRCh37	2	86,247,339 - 86,333,009 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	86,106,962 - 86,186,789 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	2	86,166,037 - 86,244,626	NCBI
Celera	2	86,081,632 - 86,161,424 (-)	NCBI		Celera
Cytogenetic Map	2	p11.2	NCBI
HuRef	2	86,150,981 - 86,230,775 (-)	NCBI		HuRef
CHM1_1	2	86,182,963 - 86,262,735 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	2	86,022,315 - 86,107,956 (-)	NCBI		T2T-CHM13v2.0

Polr1a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	71,886,037 - 71,956,419 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	71,886,037 - 71,961,919 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	6	71,909,053 - 71,979,435 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	71,909,053 - 71,984,935 (+)	Ensembl			mm10	GRCm38
MGSCv37	6	71,859,047 - 71,929,354 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	6	71,838,582 - 71,908,869 (+)	NCBI		MGSCv36	mm8
Celera	6	73,992,680 - 74,063,054 (+)	NCBI		Celera
Cytogenetic Map	6	C1	NCBI
cM Map	6	32.21	NCBI

Polr1a
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955424	1,508,037 - 1,593,108 (+)	Ensembl
ChiLan1.0	NW_004955424	1,507,935 - 1,595,068 (+)	NCBI	ChiLan1.0	ChiLan1.0

POLR1A
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	12	40,277,726 - 40,365,224 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	40,280,716 - 40,361,804 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	86,070,160 - 86,157,606 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	87,618,880 - 87,705,352 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	87,622,466 - 87,705,357 (-)	Ensembl			panPan2	panpan1.1

POLR1A
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	38,990,379 - 39,070,910 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	17	39,000,778 - 39,070,356 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	17	38,675,191 - 38,756,338 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	17	39,722,717 - 39,805,020 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	17	39,733,845 - 39,805,015 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	17	38,891,244 - 38,972,175 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	17	38,927,011 - 39,009,075 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	17	39,313,308 - 39,394,902 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Polr1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024406292	79,467,900 - 79,527,456 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936712	1,331,073 - 1,389,856 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936712	1,331,016 - 1,390,544 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

POLR1A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	58,667,971 - 58,750,421 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	3	58,670,377 - 58,750,441 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	61,529,882 - 61,609,817 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

POLR1A
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	14	21,050,526 - 21,127,010 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	14	21,050,799 - 21,125,990 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666045	91,355,366 - 91,437,424 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Polr1a
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624749	17,138,476 - 17,215,124 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624749	17,138,352 - 17,216,039 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Polr1a
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	6	74,934,138 - 74,997,846 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Polr1a
339 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	149
Count of miRNA genes:	109
Interacting mature miRNAs:	127
Transcripts:	ENSRNOT00000013587
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
631689	Scl4	Serum cholesterol level QTL 4	1.9	0.008	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	4	96731383	141731383	Rat
1582232	Gluco25	Glucose level QTL 25	3.6	0.0023	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	86583980	149763391	Rat
1358352	Srcrt3	Stress Responsive Cort QTL 3	2.29		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	39431983	123203361	Rat
1578655	Bmd11	Bone mineral density QTL 11	11		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	4	92406430	137406430	Rat
10755501	Bp390	Blood pressure QTL 390	2.5		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	4	27730518	170099664	Rat
1357342	Bw40	Body weight QTL 40		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	4	74233320	119233320	Rat
631556	Bp135	Blood pressure QTL 135		0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	80212111	119233320	Rat
61330	Eau1	Experimental allergic uveoretinitis QTL 1		0.0003	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	4	26234499	134199155	Rat
70167	Bw22	Body weight QTL 22	3.1		body mass (VT:0001259)	body weight (CMO:0000012)	4	74233320	119233320	Rat
1549839	Bw52	Body weight QTL 52		0.0001	body mass (VT:0001259)	body weight gain (CMO:0000420)	4	71647492	116647492	Rat
70177	Xhs1	X-ray hypersensitivity QTL 1	25.1		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	82944895	154403548	Rat
6909128	Pancm4	Pancreatic morphology QTL 4	11.35		pancreas mass (VT:0010144)	pancreas wet weight (CMO:0000626)	4	27862204	126119996	Rat
61476	Aia3	Adjuvant induced arthritis QTL 3	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	75939858	140508796	Rat
1641919	Alc22	Alcohol consumption QTL 22		0.0005	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	65060960	127749483	Rat
1354660	Salc1	Saline consumption QTL 1	11.26		drinking behavior trait (VT:0001422)	saline drink intake rate (CMO:0001627)	4	45429897	149763204	Rat
1298082	Stresp4	Stress response QTL 4			blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	51085655	113588029	Rat
1578670	Bss14	Bone structure and strength QTL 14	16.4		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	4	88883695	133883695	Rat
2317588	Eae27	Experimental allergic encephalomyelitis QTL 27			nervous system integrity trait (VT:0010566)	percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)	4	69036742	114036742	Rat
70201	Gcr1	Gastric cancer resistance QTL 1	2.7		stomach morphology trait (VT:0000470)	stomach tumor susceptibility score (CMO:0002043)	4	103834277	148834277	Rat
1300139	Hrtrt6	Heart rate QTL 6	2.85		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	40490442	117737312	Rat
70200	Alc18	Alcohol consumption QTL 18	9.2		drinking behavior trait (VT:0001422)	ethanol intake volume to total fluid intake volume ratio (CMO:0001591)	4	57613339	151163960	Rat
2316958	Gluco58	Glucose level QTL 58	10		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	12212457	182430611	Rat
1578662	Bss15	Bone structure and strength QTL 15	19.6		femur width (VT:1000666)	femoral neck width (CMO:0001695)	4	88883695	133883695	Rat
6478684	Anxrr30	Anxiety related response QTL 30		0.00087	defecation behavior trait (VT:0010462)	defecation rate (CMO:0000998)	4	64084079	109084079	Rat
2306547	Iddm38	Insulin dependent diabetes mellitus QTL 38			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	68353567	113353567	Rat
738009	Sach4	Saccharine consumption QTL 4	4.9	0.000016	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	4	60916264	184426481	Rat
2306545	Iddm39	Insulin dependent diabetes mellitus QTL 39			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	78687630	123687630	Rat
634335	Anxrr16	Anxiety related response QTL 16	7.22		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	4	94638356	168870820	Rat
6478772	Anxrr49	Anxiety related response QTL 49		0.15488	defecation behavior trait (VT:0010462)	defecation rate (CMO:0000998)	4	64084079	109084079	Rat
631646	Stl4	Serum triglyceride level QTL 4	6.5	0.0001	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	4	74169813	134199155	Rat
634334	Xhs3	X-ray hypersensitivity QTL 3	10		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	86058928	131411333	Rat
61406	Scwia1	Streptococcal cell wall induced arthritis QTL 1	2.3		joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	4	75939858	140508796	Rat
1354612	Foco1	Food consumption QTL 1	8.87		eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	4	45429897	149763204	Rat
2303168	Bp330	Blood pressure QTL 330	4.25	0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	5889999	148002343	Rat
738031	Alc14	Alcohol consumption QTL 14	7.6	0.00003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	60916264	174095838	Rat
1576316	Ept5	Estrogen-induced pituitary tumorigenesis QTL 5	3.8		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	4	100752691	179366077	Rat
631662	Hcar2	Hepatocarcinoma resistance QTL 2	3.1	0.0003	liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	84349032	129349032	Rat
1576305	Emca6	Estrogen-induced mammary cancer QTL 6	5.8		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	4	45429709	157555683	Rat
631651	Bp124	Blood pressure QTL 124	3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	64209744	109209744	Rat
61418	Pia5	Pristane induced arthritis QTL 5	4.5		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	63245026	129846354	Rat
738016	Alc16	Alcohol consumption QTL 16	3.6	0.00015	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	60916264	184426481	Rat
1358202	Gluco11	Glucose level QTL 11	2.4	0.02	adipocyte glucose uptake trait (VT:0004185)	absolute change in adipocyte glucose uptake (CMO:0000873)	4	86709649	168870974	Rat
1641833	Alc21	Alcohol consumption QTL 21	8.6	0.0001	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	57664252	127749483	Rat
2306899	Bp338	Blood pressure QTL 338		0.071	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	82336765	127336765	Rat
631674	Iddm14	Insulin dependent diabetes mellitus QTL 14			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	4	65495851	159259805	Rat
6478743	Anxrr40	Anxiety related response QTL 40		0.83076	defecation behavior trait (VT:0010462)	defecation rate (CMO:0000998)	4	64084079	109084079	Rat
12798523	Anxrr56	Anxiety related response QTL 56	2.83	0.05	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	86583980	131583980	Rat
61434	Cia3	Collagen induced arthritis QTL 3	4.8		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	63224393	108224393	Rat
12798520	Anxrr55	Anxiety related response QTL 55	4.45	0.01	locomotor behavior trait (VT:0001392)	number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)	4	33538597	116185060	Rat

Markers in Region

RH139579

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	4	104,013,721 - 104,013,918 (+)	MAPPER	mRatBN7.2
Rnor_6.0	4	99,886,834 - 99,887,030	NCBI	Rnor6.0
Rnor_5.0	4	164,664,730 - 164,664,926	UniSTS	Rnor5.0
RGSC_v3.4	4	105,251,093 - 105,251,289	UniSTS	RGSC3.4
Celera	4	93,170,033 - 93,170,229	UniSTS
RH 3.4 Map	4	632.15	UniSTS
Cytogenetic Map	4	q33	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	161	91	90	59	92	59	6	356	192	11	140	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_031772	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008762998	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AF025425	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473957	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000004	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U33459	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000013587 ⟹ ENSRNOP00000013587

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	4	105,508,248 - 105,574,036 (+)	Ensembl
mRatBN7.2 Ensembl	4	103,950,051 - 104,014,020 (+)	Ensembl
Rnor_6.0 Ensembl	4	99,823,252 - 99,887,132 (+)	Ensembl

RefSeq Acc Id:

NM_031772 ⟹ NP_113960

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	105,508,305 - 105,572,272 (+)	NCBI
mRatBN7.2	4	103,950,051 - 104,014,022 (+)	NCBI
Rnor_6.0	4	99,823,252 - 99,887,126 (+)	NCBI
Rnor_5.0	4	164,601,148 - 164,665,022 (+)	NCBI
RGSC_v3.4	4	105,187,426 - 105,251,385 (+)	RGD
Celera	4	93,106,344 - 93,170,325 (+)	RGD

Sequence:

show sequence

GAATTCCCTGACTGGAACTTCTCTCGTAGGGACGAACCTCAAAACTGACTCGGAAGATGCTGGC
CTCCAAGCACACGCCATGGCGGCGGCTTCAGGGCATTTCCTTCGGGATGTATTCGGCCGAGGAG
CTCAAGAAGTTAAGTGTTAAGTCCATTACAAATCCTCGCTATGTGGACAGCCTGGGAAACCCTT
CGGCAGATGGCCTGTATGATTTGGCTTTGGGTCCTGCAGATTCCAAAGAAGTATGCTCTACCTG
TGTGCAGGACTTCAACAACTGCTCCGGACACCTGGGCCACATTGACCTCCCGCTCACAGTGTAC
AACCCTCTCCTCTTCGATAAACTCTACCTGCTGCTGCGAGGCTCCTGTTTAAATTGTCATATGC
TGACTTGTCCTCGGGCTGCAATTCACCTATTGGTCTGCCAGCTGAAGGTCCTAGACGTTGGAGC
CCTACAAGCAGTCTATGAGCTTGAGCGGATTCTCAGCAGGTTTCTGGAAGAAACTTCGGATCCT
TCTGCCTTCGAAATTCAAGAAGAGTTAGAAGAGTACACAAGCAAAATTCTGCAGAATAACCTCC
TGGGGTCCCAGGGTGCACATGTGAAAAATGTGTGCGAGAGCAGAAGCAAACTTGTCGCTCACTT
CTGGAAGACACACATGGCTGCTAAGCGCTGTCCACACTGCAAGACGGGACGGTCAGTGGTTCGA
AAGGAGCACAATAGTAAGCTAACAATAACATATCCAGCCATGGTGCACAAGAAGTCTGGCCAGA
AGGATGCAGAACTCCCAGAAGGAGCACCAGCAGCTCCAGGAATTGATGAGGCTCAGATGGGGAA
ACGAGGATACTTGACCCCAAGCAGCGCCCAAGAACATCTTTTCGCCATTTGGAAGAATGAAGGA
TTCTTCCTGAATTATCTTTTTTCGGGATTGGATGATATTGGCCCAGAGTCCAGTTTCAACCCCA
GTATGTTCTTTCTAGATTTCATCGTGGTACCGCCATCCAGGTATCGTCCCATCAATCGCCTGGG
TGACCAGATGTTCACTAATGGCCAGACAGTGAATTTGCAAGCGGTCATGAAGGATGCAGTTTTG
ATCCGGAAACTTCTGGCAGTGATGGCCCAAGAACAGAAACTGCCCTGTGAGATGACAGAAATCA
CCATAGACAAGGAAAATGACTCCTCGGGTGCTATCGACCGGTCCTTTCTGAGTTTGCTTCCAGG
ACAGTCTCTCACAGATAAACTTTACAATATTTGGATTCGCCTCCAGAGCCACGTCAATATTGTG
TTTGACAGTGACATGGACAAACTGATGCTGGAAAAGTACCCTGGCATAAGACAGATCCTCGAGA
AGAAGGAAGGCCTGTTCCGGAAGCACATGATGGGAAAGCGAGTGGACTACGCAGCCCGCTCGGT
CATCTGCCCAGATATGTACATCAACACCAATGAGATCGGGATTCCCATGGTATTTGCCACAAAA
CTGACTTACCCCCAGCCAGTTACCCCCTGGAACGTGCAGGAACTGAGACAGGCAGTCATCAATG
GACCCAATGTGCACCCAGGAGCCTCCATGGTCATCAACGAGGATGGCAGTCGCACAGCCCTGAG
CGCAGTGGATGCTACACAGCGGGAAGCTGTGGCCAAACAGCTCCTGACACCGTCCACAGGGATC
CCTAAGCCTCAGGGAGCAAAAGTTGTGTGCCGGCATGTGAAGAATGGGGACATTCTCCTCCTGA
ACCGACAGCCCACCTTGCACAGACCCTCCATCCAGGCCCACCGTGCCCACATTCTGCCTGAGGA
AAAAGTCCTGCGCCTTCACTATGCCAACTGCAAGGCCTACAATGCTGACTTCGATGGAGACGAG
ATGAATGCCCACTTCCCCCAGAGTGAGCTGGGCCGAGCTGAAGCCTATGTCCTGGCCTGCACTG
ACCAGCAGTATCTTGTTCCCAAGGATGGCCAGCCCTTGGCAGGACTGATTCAGGATCACATGGT
GTCGGGTGCAAACATGACCATTCGGGGATGCTTTTTCACCCGGGAACAGTACATGGAGCTGGTG
TACCGAGGGCTCACAGACAAAGTGGGACGCGTGAAGCTCTTTCCTCCTGCCATCCTGAAGCCCT
TCCCGCTGTGGACAGGAAAGCAGGTCGTGTCGACCCTCCTCATAAACATAATCCCAGAGGACTA
CACCCCCCTGAATTTAACTGGAAAGGCAAAAATCGGCAGTAAAGCCTGGGTGAAGGAAAAGCCT
CGGCCTGTTCCTGACTTTGACCCTGACTCCATGTGTGAGTCCCAGGTGATCATCAGGGAAGGGG
AGCTGCTCTGCGGGGTGCTGGACAAGGCACACTATGGGAGCTCTGCCTACGGCCTGGTCCACTG
CTGCTACGAGATCTATGGGGGTGAGACCAGCGGCAGGGTTCTCACCTGCTTAGCCCGCCTCTTC
ACTGCCTACCTACAGCTCTATCGAGGTTTCACCTTGGGTGTGGAAGACATTTTGGTTAAGCCAA
ATGCAGATGTGATGAGACAGCGCATCATTGAAGAATCTACCCAGTGTGGACCCCGGGCTGTCAG
GGCTGCGTTGAACCTGCCAGAGGCTGCATCATGTGATGAGATCCAGGGGAAATGGCAGGATGCC
ATCTGGCGCAAAGACCAGAGGGATTTTAACATGATTGATATGAAGTTCAAGGAGGAAGTGAACC
ATTACAGCAATGAGATTAACAAGGCATGTATGCCTTTTGGCTTGCACAGACAATTCCCTGAAAA
CAACCTGCAGATGATGGTGCAGTCGGGAGCCAAAGGGTCGACCGTGAACACGATGCAAATCTCT
TGCCTGCTGGGCCAAATTGAGTTGGAAGGTCGGAGACCCCCACTGATGGCGTCTGGCAAGTCAC
TGCCCTGCTTTGAGCCTTACGAGTTCACCCCAAGGGCTGGTGGCTTTGTCACTGGAAGGTTCCT
TACCGGTATCAGGCCACCTGAGTTCTTCTTCCACTGCATGGCGGGGCGAGAAGGCCTGGTGGAT
ACTGCTGTCAAGACCAGCCGTTCTGGCTATCTCCAAAGGTGTATCATCAAGCACCTGGAGGGTC
TGGTCATCCAGTACGATCTCACGGTCCGTGACAGTGATGGCAGTGTGGTACAGTTCCTGTATGG
GGAGGATGGCCTGGACATCCCCAAGACACAGTTCCTACAACCCAAGCAGTTCCCCTTTCTGGCC
AGCAATTATGAGGTGATAATGAAATCCAAGCATCTTCATGAAGTTTTGTCTAGAGCAGATCCCC
AGAAAGTGCTCCGCCACTTCAGAGCCATTAAAAAATGGCACCACAGGCATTCCAGTGCCCTGCT
GAGAAAAGGCGCCTTCCTGAGTTTTTCCCAGAAGATTCAGGCAGCTGTGAAAGCCTTGAACCTA
GAGGGCAAGACCCAGAATGGGCGCAGCCCAGAGACCCAGCAGATGTTACAGATGTGGCATGAAT
TAGATGAGCAGAGCCGACGGAAATACCAGAAGAGGGCTGCCCCGTGTCCCGACCCTAGCCTTTC
TGTGTGGCGCCCAGACATCCACTTCGCATCTGTGTCTGAAACATTTGAAAAAAAGATTGATGAC
TACAGTCAGGAGTGGGCAGCTCAAGCAGAGAAGAGTCACAACAGATCAGAGCTTTCTCTTGACA
GGCTGAGAACCTTACTGCAGCTCAAGTGGCAGCGCTCACTGTGTGACCCAGGCGAGGCTGTTGG
CCTCCTGGCCGCCCAGAGCATCGGAGAGCCCTCCACACAGATGACACTGAACACCTTCCACTTT
GCAGGCAGAGGCGAGATGAACGTCACCCTGGGCATTCCAAGATTGAGGGAGATTCTCATGGTGG
CCAGTGCCAACATCAAAACACCCATGATGAGCGTGCCTGTGTTCAACACCAAGAAAGCACTGAG
GAGAGTGAAGAGTCTGAAGAAGCAGCTCACCAGGGTGTGCCTGGGGGAGGTATTGCAGAAAGTT
GACATCCAGGAGTCCTTCTGTATGGGAGAGAAACAGAATAAATTCCGGGTGTATGAGCTCCGGT
TTCAGTTCCTGCCACATGCATATTACCAGCAGGAGAAGTGCCTGAGACCCGAGGACATCTTGCA
CTTCATGGAAACCAGATTCTTTAAGCTACTAATGGAAGCTATCAAAAAGAAGAATAGCAAAGCA
TCAGCCTTCAGAAGTGTGAATACCAGGAGAGCTACACAGAAGGACCTCGATGACACTGAGGACT
CGGGGAGGAATCGGAGAGAGGAGGAAAGGGATGAGGAAGAGGAGGGGAACATTGTGGATGCTGA
AGCTGAGGAGGGGGATGCAGATGCTTCTGACACCAAACGCAAGGAGAAGCAAGAAGAAGAGGTT
GACTATGAGAGTGAGGAAGAAGGGGAGGAGGAAGAGGAAGAGGATGTACAAGAAGAGGAGAACA
TCAAAGGTGAAGGTGCCCACCAGACCCATGAGCCAGATGAGGAAGAAGGTTCAGGCCTTGAGGA
GGAATCATCCCAGAACCCTCCCTGCCGCCATTCCAGGCCTCAGGGAGCTGAGGCCATGGAACGC
CGAATCCAGGCTGTACGGGAGTCCCATTCGTTCATTGAGGACTACCAGTATGACACAGAGGAGA
GCCTGTGGTGCCAGGTGACAGTGAAGCTCCCATTGATGAAGATTAATTTTGACATGAGCTCCTT
GGTTGTATCCTTGGCCCACAATGCCATTGTCTATACGACTAAGGGCATCACTCGGTGTCTCCTG
AACGAAACGATCAACAGTAAGAATGAGAAGGAGTTTGTCCTGAACACGGAGGGAATCAACCTCC
CCGAGCTGTTCAAGTACTCCGAGGTGCTGGACCTGCGCCGCCTGTACTCCAACGACATCCATGC
TGTGGCCAATACGTACGGCATCGAGGCTGCGCTGCGGGTGATAGAGAAGGAGATTAAGGATGTG
TTTGCTGTGTACGGCATTGCGGTTGATCCTCGCCATCTCTCCCTGGTTGCTGATTATATGTGTT
TTGAGGGTGTTTATAAGCCACTCAATCGCTTTGGGATCCAGTCAAGCTCCTCCCCTTTGCAGCA
GATGACGTTTGAAACCAGCTTCCAGTTTCTGAAACAGGCCACCATGATGGGATCCCATGATGAA
CTGAAGTCACCTTCTGCCTGCCTTGTGGTGGGAAAGGTCGTCAAAGGCGGGACAGGCCTGTTTG
AGCTCAAGCAGCCCCTAAGATAGCAGGGTTGTTTGCCCAGCCTGGAGGACCTGGAGGTGGGCAC
AGCTGACAGTTGAGAGTGACATAGCAAAGCAGTGACCTCAGGCTCCAGAAAGCAGTGGCCTGAG
CTGAGCCAGCTTCACTGAGAAGAGGCTCCTCCTACCTAGCCTTTTCTGCCTCAGGATCAGGAAC
AACGCACCCCAGGCCCTCCAAGATGGCTATGGCTGACTTGTGCTCCAGGGGGCCCAACCAAGAT
CCTAACGAGAGACCTAGGACTACACAGTGGCAAGATCACTGTGGGCCATGTTGGCTTTGGGAAT
CTCAGGTCCCACCATTACTGTGCATAGCTAGTAGCTAAGGACACATTCCTAAGGGCTCCTGAAG
ATCCAGAAAGGACATGAAACCTGCTTCATGTACCTGTCCCTCCTGCTGCAGCTACTGAAGGAGA
GTCCTCAAAGAGCCTCCACCCAGGGCTGCTTTCCTGGGCCAGAATCAGTGGCACAGTATGGCTG
CTTGCACTAGACCAGACTGCCCCAATAGACATCTCTCTGGGACCGCAGCAGCTCTACCTCACAC
AAGCCCCAAGTTTCCCACTGGGGCTGTTCAGCAAGGCCAAGTGGCTTGACCTTCCTACCCCCGC
ACTCAGCTTGCTGTCAGAGCCCATAGTCACCCCCAGACCCTGCACTTTTGGGGCCTTTGCCATG
GAGTGAGACTCCCTGACTGGACAGGAAGGCAGAGGCTTTATAAAGCTGGGCCGTTTCTATTTTT
GTCCACTGTTATTCCAACATGGGCTGAGCAATAAACCTGGCTGGAACCGGCTGTTAGAAGGAAT
TC

hide sequence

Protein Sequences


Protein RefSeqs	NP_113960	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAB94601	(Get FASTA)	NCBI Sequence Viewer
	AAC99958	(Get FASTA)	NCBI Sequence Viewer
	EDL91011	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000013587
GenBank Protein	O54889	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_113960 ⟸ NM_031772

- UniProtKB:

O54889 (UniProtKB/Swiss-Prot), G3V7B7 (UniProtKB/TrEMBL), A6IA93 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MLASKHTPWRRLQGISFGMYSAEELKKLSVKSITNPRYVDSLGNPSADGLYDLALGPADSKEVC
STCVQDFNNCSGHLGHIDLPLTVYNPLLFDKLYLLLRGSCLNCHMLTCPRAAIHLLVCQLKVLD
VGALQAVYELERILSRFLEETSDPSAFEIQEELEEYTSKILQNNLLGSQGAHVKNVCESRSKLV
AHFWKTHMAAKRCPHCKTGRSVVRKEHNSKLTITYPAMVHKKSGQKDAELPEGAPAAPGIDEAQ
MGKRGYLTPSSAQEHLFAIWKNEGFFLNYLFSGLDDIGPESSFNPSMFFLDFIVVPPSRYRPIN
RLGDQMFTNGQTVNLQAVMKDAVLIRKLLAVMAQEQKLPCEMTEITIDKENDSSGAIDRSFLSL
LPGQSLTDKLYNIWIRLQSHVNIVFDSDMDKLMLEKYPGIRQILEKKEGLFRKHMMGKRVDYAA
RSVICPDMYINTNEIGIPMVFATKLTYPQPVTPWNVQELRQAVINGPNVHPGASMVINEDGSRT
ALSAVDATQREAVAKQLLTPSTGIPKPQGAKVVCRHVKNGDILLLNRQPTLHRPSIQAHRAHIL
PEEKVLRLHYANCKAYNADFDGDEMNAHFPQSELGRAEAYVLACTDQQYLVPKDGQPLAGLIQD
HMVSGANMTIRGCFFTREQYMELVYRGLTDKVGRVKLFPPAILKPFPLWTGKQVVSTLLINIIP
EDYTPLNLTGKAKIGSKAWVKEKPRPVPDFDPDSMCESQVIIREGELLCGVLDKAHYGSSAYGL
VHCCYEIYGGETSGRVLTCLARLFTAYLQLYRGFTLGVEDILVKPNADVMRQRIIEESTQCGPR
AVRAALNLPEAASCDEIQGKWQDAIWRKDQRDFNMIDMKFKEEVNHYSNEINKACMPFGLHRQF
PENNLQMMVQSGAKGSTVNTMQISCLLGQIELEGRRPPLMASGKSLPCFEPYEFTPRAGGFVTG
RFLTGIRPPEFFFHCMAGREGLVDTAVKTSRSGYLQRCIIKHLEGLVIQYDLTVRDSDGSVVQF
LYGEDGLDIPKTQFLQPKQFPFLASNYEVIMKSKHLHEVLSRADPQKVLRHFRAIKKWHHRHSS
ALLRKGAFLSFSQKIQAAVKALNLEGKTQNGRSPETQQMLQMWHELDEQSRRKYQKRAAPCPDP
SLSVWRPDIHFASVSETFEKKIDDYSQEWAAQAEKSHNRSELSLDRLRTLLQLKWQRSLCDPGE
AVGLLAAQSIGEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMVASANIKTPMMSVPVFNTKK
ALRRVKSLKKQLTRVCLGEVLQKVDIQESFCMGEKQNKFRVYELRFQFLPHAYYQQEKCLRPED
ILHFMETRFFKLLMEAIKKKNSKASAFRSVNTRRATQKDLDDTEDSGRNRREEERDEEEEGNIV
DAEAEEGDADASDTKRKEKQEEEVDYESEEEGEEEEEEDVQEEENIKGEGAHQTHEPDEEEGSG
LEEESSQNPPCRHSRPQGAEAMERRIQAVRESHSFIEDYQYDTEESLWCQVTVKLPLMKINFDM
SSLVVSLAHNAIVYTTKGITRCLLNETINSKNEKEFVLNTEGINLPELFKYSEVLDLRRLYSND
IHAVANTYGIEAALRVIEKEIKDVFAVYGIAVDPRHLSLVADYMCFEGVYKPLNRFGIQSSSSP
LQQMTFETSFQFLKQATMMGSHDELKSPSACLVVGKVVKGGTGLFELKQPLR

hide sequence

Ensembl Acc Id:

ENSRNOP00000013587 ⟸ ENSRNOT00000013587

Protein Domains

RNA polymerase N-terminal

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-O54889-F1-model_v2	AlphaFold	O54889	1-1716	view protein structure

Transcriptome

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

Promoters

RGD ID:

13693120

Promoter ID:

EPDNEW_R3645

Type:

multiple initiation site

Name:

Polr1a_1

Description:

RNA polymerase I subunit A

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	4	99,823,195 - 99,823,255	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:620824	AgrOrtholog
BioCyc Gene	G2FUF-44172	BioCyc
Ensembl Genes	ENSRNOG00000009545	Ensembl, ENTREZGENE
Ensembl Transcript	ENSRNOT00000013587	ENTREZGENE
Gene3D-CATH	1.10.132.30	UniProtKB/Swiss-Prot
	1.10.274.100	UniProtKB/Swiss-Prot
	1.10.357.120	UniProtKB/Swiss-Prot
	2.40.40.20	UniProtKB/Swiss-Prot
	3.30.70.2850	UniProtKB/Swiss-Prot
	4.10.860.120	UniProtKB/Swiss-Prot
	6.10.250.2940	UniProtKB/Swiss-Prot
	RNA polymerase ii	UniProtKB/Swiss-Prot
InterPro	DNA-dir_RNA_pol1_lsu_C	UniProtKB/Swiss-Prot
	DNA-dir_RNA_pol1_lsu_N	UniProtKB/Swiss-Prot
	DNA-dir_RpoC_beta_prime	UniProtKB/Swiss-Prot
	RNA_pol_asu	UniProtKB/Swiss-Prot
	RNA_pol_N	UniProtKB/Swiss-Prot
	RNA_pol_Rpb1_1	UniProtKB/Swiss-Prot
	RNA_pol_Rpb1_3	UniProtKB/Swiss-Prot
	RNA_pol_Rpb1_3_sf	UniProtKB/Swiss-Prot
	RNA_pol_Rpb1_4	UniProtKB/Swiss-Prot
	RNA_pol_Rpb1_5	UniProtKB/Swiss-Prot
	RNA_pol_Rpb1_clamp_domain	UniProtKB/Swiss-Prot
	Rpb1_funnel_sf	UniProtKB/Swiss-Prot
KEGG Report	rno:83581	UniProtKB/Swiss-Prot
NCBI Gene	83581	ENTREZGENE
PANTHER	PTHR19376	UniProtKB/Swiss-Prot
	PTHR19376:SF11	UniProtKB/Swiss-Prot
Pfam	RNA_pol_Rpb1_1	UniProtKB/Swiss-Prot
	RNA_pol_Rpb1_2	UniProtKB/Swiss-Prot
	RNA_pol_Rpb1_3	UniProtKB/Swiss-Prot
	RNA_pol_Rpb1_4	UniProtKB/Swiss-Prot
	RNA_pol_Rpb1_5	UniProtKB/Swiss-Prot
PhenoGen	Polr1a	PhenoGen
RatGTEx	ENSRNOG00000009545	RatGTEx
SMART	RPOLA_N	UniProtKB/Swiss-Prot
Superfamily-SCOP	beta and beta-prime subunits of DNA dependent RNA-polymerase	UniProtKB/Swiss-Prot
UniProt	A6IA93	ENTREZGENE, UniProtKB/TrEMBL
	G3V7B7	ENTREZGENE, UniProtKB/TrEMBL
	O54889	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-07-21	Polr1a	RNA polymerase I subunit A	Polr1a	polymerase (RNA) I subunit A	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2016-03-09	Polr1a	polymerase (RNA) I subunit A	Polr1a	polymerase (RNA) I polypeptide A	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-11-06	Polr1a	polymerase (RNA) I polypeptide A	Rpo1-4	RNA polymerase 1-4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-02-11	Ptpn23	RNA polymerase 1-4	Rpo1-4	RNA polymerase I (194 kDa subunit)	Name updated to reflect Human and Mouse nomenclature	625702	APPROVED
2002-08-07	Rpo1-4	RNA polymerase I (194 kDa subunit)			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)