Polr2a (RNA polymerase II subunit A) - Rat Genome Database

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Gene: Polr2a (RNA polymerase II subunit A) Ictidomys tridecemlineatus
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Symbol: Polr2a
Name: RNA polymerase II subunit A
RGD ID: 12673068
Description: ENCODES a protein that exhibits kinase binding (ortholog); magnesium ion binding (ortholog); microfibril binding (ortholog); INVOLVED IN cellular response to oxygen levels (ortholog); DNA-templated transcription termination (ortholog); positive regulation of RNA splicing (ortholog); PARTICIPATES IN RNA polymerase II transcription pathway; ASSOCIATED WITH common variable immunodeficiency (ortholog); congenital myasthenic syndrome 2A (ortholog); Developmental Disease (ortholog); FOUND IN nucleolus (ortholog); Prp19 complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: DNA-directed RNA polymerase II subunit RPB1; polymerase (RNA) II (DNA directed) polypeptide A, 220kDa; RNA polymerase II subunit A, transcript variant X1; RNA polymerase II subunit A, transcript variant X2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560247,281,387 - 47,307,489 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936595755,535 - 781,783 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936595755,585 - 781,692 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Polr2a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560247,281,387 - 47,307,489 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936595755,535 - 781,783 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936595755,585 - 781,692 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
POLR2A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38177,484,366 - 7,514,616 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl177,484,366 - 7,514,616 (+)EnsemblGRCh38hg38GRCh38
GRCh37177,387,685 - 7,417,933 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36177,328,422 - 7,358,653 (+)NCBINCBI36Build 36hg18NCBI36
Build 34177,328,421 - 7,358,653NCBI
Celera177,414,117 - 7,444,201 (+)NCBICelera
Cytogenetic Map17p13.1NCBI
HuRef177,281,725 - 7,311,963 (+)NCBIHuRef
CHM1_1177,396,777 - 7,426,944 (+)NCBICHM1_1
T2T-CHM13v2.0177,388,413 - 7,418,678 (+)NCBIT2T-CHM13v2.0
Polr2a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391169,624,823 - 69,649,459 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1169,624,823 - 69,649,463 (-)EnsemblGRCm39 Ensembl
GRCm381169,733,997 - 69,758,633 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1169,733,997 - 69,758,637 (-)EnsemblGRCm38mm10GRCm38
MGSCv371169,547,912 - 69,571,725 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361169,550,605 - 69,574,418 (-)NCBIMGSCv36mm8
MGSCv361170,318,517 - 70,342,330 (-)NCBIMGSCv36mm8
Cytogenetic Map11B3NCBI
cM Map1142.86NCBI
Polr2a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81054,951,162 - 54,977,179 (-)NCBIGRCr8
mRatBN7.21054,452,438 - 54,478,486 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1054,452,441 - 54,478,455 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01056,339,277 - 56,364,888 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1056,339,284 - 56,365,084 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01056,084,677 - 56,110,778 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41056,552,872 - 56,579,172 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1053,606,814 - 53,632,373 (-)NCBICelera
Cytogenetic Map10q24NCBI
Polr2a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554679,421,256 - 9,447,530 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554679,423,540 - 9,447,530 (-)NCBIChiLan1.0ChiLan1.0
POLR2A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21915,079,746 - 15,109,789 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11717,045,567 - 17,075,869 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0177,516,940 - 7,546,989 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1177,502,807 - 7,532,761 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl177,502,807 - 7,532,521 (+)Ensemblpanpan1.1panPan2
POLR2A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1532,403,814 - 32,429,717 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl532,403,829 - 32,429,681 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha532,541,944 - 32,567,696 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0532,509,534 - 32,535,275 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl532,509,552 - 32,535,260 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1532,474,744 - 32,500,516 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0532,433,445 - 32,459,212 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0532,610,752 - 32,636,501 (+)NCBIUU_Cfam_GSD_1.0
POLR2A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1252,779,828 - 52,807,598 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11252,779,833 - 52,806,210 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21254,952,789 - 54,972,415 (-)NCBISscrofa10.2Sscrofa10.2susScr3
POLR2A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1166,860,487 - 6,889,054 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl166,860,677 - 6,888,618 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605914,516,279 - 14,548,527 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Polr2a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478610,097,294 - 10,122,893 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478610,098,133 - 10,122,783 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


RefSeq Acc Id: ENSSTOT00000001310   ⟹   ENSSTOP00000001173
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936595755,909 - 781,783 (+)Ensembl
RefSeq Acc Id: ENSSTOT00000030448   ⟹   ENSSTOP00000031089
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936595755,535 - 781,679 (+)Ensembl
RefSeq Acc Id: ENSSTOT00000035048   ⟹   ENSSTOP00000029478
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936595755,986 - 781,249 (+)Ensembl
RefSeq Acc Id: XM_005332799   ⟹   XP_005332856
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560247,281,387 - 47,307,489 (+)NCBI
SpeTri2.0NW_004936595755,585 - 781,679 (+)NCBI
Sequence:
RefSeq Acc Id: XM_040269365   ⟹   XP_040125299
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560247,285,088 - 47,307,489 (+)NCBI
Protein Sequences
Protein RefSeqs XP_005332856 (Get FASTA)   NCBI Sequence Viewer  
  XP_040125299 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000001173.3
  ENSSTOP00000029478.1
  ENSSTOP00000031089.1
GenBank Protein KAG3269877 (Get FASTA)   NCBI Sequence Viewer  
  KAG3269878 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005332856   ⟸   XM_005332799
- Peptide Label: isoform X1
- UniProtKB: I3LYD0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040125299   ⟸   XM_040269365
- Peptide Label: isoform X2
RefSeq Acc Id: ENSSTOP00000001173   ⟸   ENSSTOT00000001310
RefSeq Acc Id: ENSSTOP00000029478   ⟸   ENSSTOT00000035048
RefSeq Acc Id: ENSSTOP00000031089   ⟸   ENSSTOT00000030448
Protein Domains
RNA polymerase N-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000001304 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000001310.3 UniProtKB/TrEMBL
  ENSSTOT00000030448.1 UniProtKB/TrEMBL
  ENSSTOT00000035048.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.132.30 UniProtKB/TrEMBL
  1.10.150.390 UniProtKB/TrEMBL
  1.10.274.100 UniProtKB/TrEMBL
  2.40.40.20 UniProtKB/TrEMBL
  3.30.1360.140 UniProtKB/TrEMBL
  4.10.860.120 UniProtKB/TrEMBL
  6.10.250.2940 UniProtKB/TrEMBL
  6.20.50.80 UniProtKB/TrEMBL
  RNA polymerase ii UniProtKB/TrEMBL
InterPro DNA-dir_RpoC_beta_prime UniProtKB/TrEMBL
  RNA_pol_asu UniProtKB/TrEMBL
  RNA_pol_II_repeat_euk UniProtKB/TrEMBL
  RNA_pol_N UniProtKB/TrEMBL
  RNA_pol_Rpb1_1 UniProtKB/TrEMBL
  RNA_pol_Rpb1_3 UniProtKB/TrEMBL
  RNA_pol_Rpb1_3_sf UniProtKB/TrEMBL
  RNA_pol_Rpb1_4 UniProtKB/TrEMBL
  RNA_pol_Rpb1_5 UniProtKB/TrEMBL
  RNA_pol_Rpb1_6 UniProtKB/TrEMBL
  RNA_pol_Rpb1_7 UniProtKB/TrEMBL
  RNA_pol_Rpb1_7_sf UniProtKB/TrEMBL
  RNA_pol_Rpb1_clamp_domain UniProtKB/TrEMBL
  Rpb1_funnel_sf UniProtKB/TrEMBL
NCBI Gene Polr2a ENTREZGENE
PANTHER DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 UniProtKB/TrEMBL
  PTHR19376 UniProtKB/TrEMBL
Pfam RNA_pol_Rpb1_1 UniProtKB/TrEMBL
  RNA_pol_Rpb1_2 UniProtKB/TrEMBL
  RNA_pol_Rpb1_3 UniProtKB/TrEMBL
  RNA_pol_Rpb1_4 UniProtKB/TrEMBL
  RNA_pol_Rpb1_5 UniProtKB/TrEMBL
  RNA_pol_Rpb1_6 UniProtKB/TrEMBL
  RNA_pol_Rpb1_7 UniProtKB/TrEMBL
  RNA_pol_Rpb1_R UniProtKB/TrEMBL
PRINTS PRICHEXTENSN UniProtKB/TrEMBL
PROSITE RNA_POL_II_REPEAT UniProtKB/TrEMBL
SMART RPOLA_N UniProtKB/TrEMBL
Superfamily-SCOP beta and beta-prime subunits of DNA dependent RNA-polymerase UniProtKB/TrEMBL
UniProt A0A287D7H0_ICTTR UniProtKB/TrEMBL
  I3LYD0 ENTREZGENE, UniProtKB/TrEMBL