POLR2J (RNA polymerase II subunit J) - Rat Genome Database

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Gene: POLR2J (RNA polymerase II subunit J) Sus scrofa
Analyze
Symbol: POLR2J (Ensembl: POLR2J2)
Name: RNA polymerase II subunit J (Ensembl:RNA polymerase II subunit J2)
RGD ID: 14267022
Description: ENCODES a protein that exhibits LRR domain binding (ortholog); INVOLVED IN DNA-templated transcription (inferred); transcription by RNA polymerase II (inferred); PARTICIPATES IN RNA polymerase II transcription pathway; ASSOCIATED WITH genetic disease (ortholog); pleomorphic xanthoastrocytoma (ortholog); FOUND IN DNA-directed RNA polymerase complex (inferred); nucleus (inferred); RNA polymerase II, core complex (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: DNA-directed RNA polymerase II subunit RPB11-a
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl39,812,441 - 9,816,656 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.139,812,746 - 9,816,657 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.239,695,498 - 9,699,407 (+)NCBISscrofa10.2Sscrofa10.2susScr3
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
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
POLR2J
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl39,812,441 - 9,816,656 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.139,812,746 - 9,816,657 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.239,695,498 - 9,699,407 (+)NCBISscrofa10.2Sscrofa10.2susScr3
POLR2J
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387102,473,128 - 102,478,922 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7102,473,128 - 102,478,922 (-)EnsemblGRCh38hg38GRCh38
GRCh377102,113,575 - 102,119,369 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367101,900,552 - 101,906,386 (-)NCBINCBI36Build 36hg18NCBI36
Build 347101,707,623 - 101,713,077NCBI
Celera797,125,817 - 97,127,251 (-)NCBICelera
Cytogenetic Map7q22.1NCBI
HuRef796,703,776 - 96,705,210 (-)NCBIHuRef
CHM1_17102,043,567 - 102,049,407 (-)NCBICHM1_1
T2T-CHM13v2.07103,790,727 - 103,796,555 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27101,473,848 - 101,479,682 (-)NCBI
Polr2j
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395136,145,545 - 136,151,801 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5136,145,485 - 136,151,801 (+)EnsemblGRCm39 Ensembl
GRCm385136,116,691 - 136,122,947 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5136,116,631 - 136,122,947 (+)EnsemblGRCm38mm10GRCm38
MGSCv375136,592,561 - 136,598,817 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365136,401,364 - 136,407,566 (+)NCBIMGSCv36mm8
Celera5133,137,045 - 133,143,301 (+)NCBICelera
Cytogenetic Map5G2NCBI
cM Map575.8NCBI
Polr2j
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81226,179,649 - 26,185,201 (-)NCBIGRCr8
mRatBN7.21220,543,038 - 20,548,590 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1220,543,038 - 20,548,594 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1221,683,016 - 21,688,571 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01222,295,721 - 22,301,276 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01221,361,193 - 21,366,748 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01223,587,222 - 23,592,774 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1223,587,222 - 23,592,774 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01225,587,572 - 25,593,124 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41221,658,406 - 21,663,958 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11221,649,381 - 21,654,560 (-)NCBI
Celera1222,311,433 - 22,316,972 (-)NCBICelera
Cytogenetic Map12q12NCBI
Polr2j
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545615,146,713 - 15,151,311 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545615,146,713 - 15,151,320 (+)NCBIChiLan1.0ChiLan1.0
POLR2J
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.167,707,426 - 7,710,882 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha69,402,443 - 9,405,898 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.067,527,599 - 7,531,054 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl67,527,645 - 7,531,266 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.167,496,109 - 7,499,564 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.067,459,175 - 7,462,631 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.067,622,887 - 7,626,343 (+)NCBIUU_Cfam_GSD_1.0
Polr2j
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344132,136,578 - 132,140,703 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365431,895,828 - 1,899,904 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365431,895,827 - 1,899,918 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
POLR2J
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12810,742,636 - 10,748,084 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2810,742,570 - 10,749,382 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660705,660,475 - 5,666,066 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Polr2j
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474015,169,459 - 15,173,805 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474015,169,414 - 15,174,212 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in POLR2J
48 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 10 4 3 5 2 23 2 3 3
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000008429   ⟹   ENSSSCP00000008210
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl39,812,727 - 9,816,629 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000075846   ⟹   ENSSSCP00000064757
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl39,812,448 - 9,816,630 (-)Ensembl
RefSeq Acc Id: XM_003124394   ⟹   XP_003124442
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.139,812,746 - 9,816,657 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_003124442   ⟸   XM_003124394
- UniProtKB: F1RKE4 (UniProtKB/TrEMBL),   A0A4X1UK25 (UniProtKB/TrEMBL),   A0A8D0TE17 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000008210   ⟸   ENSSSCT00000008429
RefSeq Acc Id: ENSSSCP00000064757   ⟸   ENSSSCT00000075846
Protein Domains
DNA-directed RNA polymerase RBP11-like dimerisation


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000007688 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005017371 UniProtKB/TrEMBL
  ENSSSCG00015040405 UniProtKB/TrEMBL
  ENSSSCG00025070636 UniProtKB/TrEMBL
  ENSSSCG00030070062 UniProtKB/TrEMBL
  ENSSSCG00035008312 UniProtKB/TrEMBL
  ENSSSCG00040062086 UniProtKB/TrEMBL
  ENSSSCG00045035892 UniProtKB/TrEMBL
  ENSSSCG00050077622 UniProtKB/TrEMBL
  ENSSSCG00055003574 UniProtKB/TrEMBL
  ENSSSCG00060032137 UniProtKB/TrEMBL
  ENSSSCG00065048416 UniProtKB/TrEMBL
  ENSSSCG00070017557 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000008429 ENTREZGENE
  ENSSSCT00000008429.5 UniProtKB/TrEMBL
  ENSSSCT00000075846.2 UniProtKB/TrEMBL
  ENSSSCT00005027354.1 UniProtKB/TrEMBL
  ENSSSCT00005027431.1 UniProtKB/TrEMBL
  ENSSSCT00015053828.1 UniProtKB/TrEMBL
  ENSSSCT00015053913.1 UniProtKB/TrEMBL
  ENSSSCT00025096971.1 UniProtKB/TrEMBL
  ENSSSCT00025097037.1 UniProtKB/TrEMBL
  ENSSSCT00030097987.1 UniProtKB/TrEMBL
  ENSSSCT00030098022.1 UniProtKB/TrEMBL
  ENSSSCT00035010374.1 UniProtKB/TrEMBL
  ENSSSCT00035010379.1 UniProtKB/TrEMBL
  ENSSSCT00040084517.1 UniProtKB/TrEMBL
  ENSSSCT00040084576.1 UniProtKB/TrEMBL
  ENSSSCT00045061610.1 UniProtKB/TrEMBL
  ENSSSCT00045061658.1 UniProtKB/TrEMBL
  ENSSSCT00050106852.1 UniProtKB/TrEMBL
  ENSSSCT00050106858.1 UniProtKB/TrEMBL
  ENSSSCT00055006998.1 UniProtKB/TrEMBL
  ENSSSCT00055007010.1 UniProtKB/TrEMBL
  ENSSSCT00060043479.1 UniProtKB/TrEMBL
  ENSSSCT00060043487.1 UniProtKB/TrEMBL
  ENSSSCT00065066224.1 UniProtKB/TrEMBL
  ENSSSCT00065066227.1 UniProtKB/TrEMBL
  ENSSSCT00070034643.1 UniProtKB/TrEMBL
  ENSSSCT00070034658.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1360.10 UniProtKB/TrEMBL
InterPro RBP11 UniProtKB/TrEMBL
  RBP11-like UniProtKB/TrEMBL
  RBP11-like_dimer UniProtKB/TrEMBL
  RNA_pol_Rpb11_13-16kDa_CS UniProtKB/TrEMBL
  Rpo11-like UniProtKB/TrEMBL
KEGG Report ssc:100521614 UniProtKB/TrEMBL
NCBI Gene POLR2J ENTREZGENE
PANTHER DNA-DIRECTED RNA POLYMERASE I,II,III UniProtKB/TrEMBL
  DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 UniProtKB/TrEMBL
Pfam RNA_pol_L_2 UniProtKB/TrEMBL
PROSITE RNA_POL_L_13KD UniProtKB/TrEMBL
Superfamily-SCOP SSF55257 UniProtKB/TrEMBL
UniProt A0A4X1UIA9_PIG UniProtKB/TrEMBL
  A0A4X1UK25 ENTREZGENE
  A0A5G2QRV8_PIG UniProtKB/TrEMBL
  A0A8D0TE17 ENTREZGENE, UniProtKB/TrEMBL
  F1RKE4 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A4X1UK25 UniProtKB/TrEMBL