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Pathways
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PATHWAY ONTOLOGY - ANNOTATIONS

The Pathway Ontology (PW), is currently being developed at the Rat Genome Database. For more information about this vocabulary, please see Petri et al. The rat genome database pathway portal. Database (Oxford). 2011 Apr 8;2011:bar010. Print 2011 or contact us (http://rgd.mcw.edu/contact/index.shtml).
Term:RNA polymerase II transcription initiation pathway
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Accession:PW:0001274 term browser browse the term
Definition:RNA polymerase II and a set of general and specific transcription factors assemble as a large pre-initiation complex which undergoes a series of transformations before transcription proceeds. Promoter recognition and subsequent initiation of transcription are dependent upon the presence of these transcription factors. Activators and repressors impact upon transcription at these early stages.
Synonyms:related_synonym: RNA Polymerase II Transcription Initiation;   transcription initiation at RNA polymerase II promoter


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RNA polymerase II transcription initiation pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atxn7 ataxin 7 ISO RGD PMID:22426530 RGD:9681728 NCBI chr15:11,117,360...11,262,818
Ensembl chr15:11,118,886...11,263,106 		JBrowse link
G Atxn7l3 ataxin 7-like 3 ISO RGD PMID:22426530 RGD:9681728 NCBI chr10:87,242,843...87,250,186
Ensembl chr10:87,243,587...87,250,620 		JBrowse link
G Ccnh cyclin H ISO RGD PMID:21592869 RGD:9681726 NCBI chr 2:15,835,064...15,855,648
Ensembl chr 2:15,834,833...15,855,819 		JBrowse link
G Cdk7 cyclin-dependent kinase 7 ISO RGD PMID:21592869 RGD:9681726 NCBI chr 2:31,840,558...31,865,422
Ensembl chr 2:31,840,558...31,865,383 		JBrowse link
G Dr1 down-regulator of transcription 1 ISO RGD PMID:22426530 RGD:9681728 NCBI chr14:1,458,223...1,469,578
Ensembl chr14:1,458,223...1,469,638 		JBrowse link
G Eny2 ENY2, transcription and export complex 2 subunit ISO RGD PMID:22426530 RGD:9681728 NCBI chr 7:75,581,215...75,605,903
Ensembl chr 7:75,581,240...75,605,897 		JBrowse link
G Ercc2 ERCC excision repair 2, TFIIH core complex helicase subunit ISO RGD PMID:21592869 RGD:9681726 NCBI chr 1:79,033,342...79,047,102
Ensembl chr 1:79,033,326...79,047,102 		JBrowse link
G Ercc3 ERCC excision repair 3, TFIIH core complex helicase subunit ISO RGD PMID:21592869 RGD:9681726 NCBI chr18:23,883,613...23,914,326
Ensembl chr18:23,883,580...23,914,329 		JBrowse link
G Ercc5 ERCC excision repair 5, endonuclease ISO RGD PMID:21592869 RGD:9681726 NCBI chr 9:46,309,477...46,354,478
Ensembl chr 9:46,309,389...46,354,472 		JBrowse link
G Gtf2a1 general transcription factor 2A subunit 1 ISO RGD PMID:24120742 RGD:9681721 NCBI chr 6:110,488,891...110,521,502
Ensembl chr 6:110,488,931...110,521,511 		JBrowse link
G Gtf2a2 general transcription factor 2A subunit 2 ISO RGD PMID:24120742 RGD:9681721 NCBI chr 8:70,662,447...70,675,576
Ensembl chr 8:70,662,428...70,675,569 		JBrowse link
G Gtf2b general transcription factor IIB ISO RGD PMID:24120742 RGD:9681721 NCBI chr 2:231,767,317...231,785,626
Ensembl chr 2:231,767,238...231,785,651 		JBrowse link
G Gtf2e1 general transcription factor IIE subunit 1 ISO RGD PMID:24120742 RGD:9681721 NCBI chr11:63,182,073...63,215,349
Ensembl chr11:63,182,349...63,213,942 		JBrowse link
G Gtf2e2 general transcription factor IIE subunit 2 ISO RGD PMID:24120742 RGD:9681721 NCBI chr16:58,399,307...58,449,467
Ensembl chr16:58,399,107...58,449,371 		JBrowse link
G Gtf2f1 general transcription factor IIF subunit 1 ISO RGD PMID:24120742 RGD:9681721 NCBI chr 9:1,844,027...1,853,455
Ensembl chr 9:1,843,901...1,853,423 		JBrowse link
G Gtf2f2 general transcription factor IIF subunit 2 ISO RGD PMID:24120742 RGD:9681721 NCBI chr15:51,206,027...51,327,166
Ensembl chr15:51,206,031...51,327,253 		JBrowse link
G Gtf2h1 general transcription factor IIH subunit 1 ISO RGD PMID:21592869 RGD:9681726 NCBI chr 1:97,321,417...97,349,455
Ensembl chr 1:97,321,394...97,349,455 		JBrowse link
G Gtf2h2 general transcription factor IIH subunit 2 ISO RGD PMID:21592869 RGD:9681726 NCBI chr 2:31,623,752...31,652,697
Ensembl chr 2:31,624,678...31,652,592 		JBrowse link
G Gtf2h3 general transcription factor IIH subunit 3 ISO RGD PMID:21592869 RGD:9681726 NCBI chr12:32,009,010...32,025,484
Ensembl chr12:32,009,014...32,025,497 		JBrowse link
G Gtf2h4 general transcription factor 2H subunit 4 ISO RGD PMID:21592869 RGD:9681726 NCBI chr20:3,071,328...3,076,990
Ensembl chr20:3,071,328...3,076,984 		JBrowse link
G Gtf2h5 general transcription factor IIH subunit 5 ISO RGD PMID:21592869 RGD:9681726 NCBI chr 1:46,656,804...46,663,512
Ensembl chr 1:46,656,859...46,664,939 		JBrowse link
G Hcfc2 host cell factor C2 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 7:20,983,986...21,019,826
Ensembl chr 7:20,991,017...21,019,801 		JBrowse link
G Kat14 lysine acetyltransferase 14 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 3:131,736,430...131,781,732
Ensembl chr 3:131,736,549...131,781,706 		JBrowse link
G Kat2a lysine acetyltransferase 2A ISO RGD PMID:22426530 RGD:9681728 NCBI chr10:85,632,216...85,640,561
Ensembl chr10:85,632,216...85,640,166 		JBrowse link
G Kat2b lysine acetyltransferase 2B ISO RGD PMID:22426530 RGD:9681728 NCBI chr 9:6,562,525...6,667,064
Ensembl chr 9:6,562,288...6,667,064 		JBrowse link
G Mbip MAP3K12 binding inhibitory protein 1 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 6:73,808,133...73,825,394
Ensembl chr 6:73,808,133...73,825,374 		JBrowse link
G Mnat1 MNAT1 component of CDK activating kinase ISO RGD PMID:21592869 RGD:9681726 NCBI chr 6:91,814,703...91,971,945
Ensembl chr 6:91,814,749...91,970,744 		JBrowse link
G Pole3 DNA polymerase epsilon 3, accessory subunit ISO RGD PMID:22426530 RGD:9681728 NCBI chr 5:75,973,941...75,977,175
Ensembl chr 5:75,974,717...75,977,231
Ensembl chr 7:75,974,717...75,977,231 		JBrowse link
G Sgf29 SAGA complex associated factor 29 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 1:181,238,458...181,271,931
Ensembl chr 1:181,238,468...181,274,781 		JBrowse link
G Supt20h SPT20 homolog, SAGA complex component ISO RGD PMID:22426530 RGD:9681728 NCBI chr 2:138,897,316...138,930,493
Ensembl chr 2:138,897,416...138,930,495 		JBrowse link
G Supt3h SPT3 homolog, SAGA and STAGA complex component ISO RGD PMID:22426530 RGD:9681728 NCBI chr 9:15,878,296...16,206,768
Ensembl chr 9:15,868,287...16,206,706 		JBrowse link
G Supt7l SPT7 like, STAGA complex subunit gamma ISO RGD PMID:22426530 RGD:9681728 NCBI chr 6:24,933,941...24,944,656
Ensembl chr 6:24,933,923...24,944,654 		JBrowse link
G Tada1 transcriptional adaptor 1 ISO RGD PMID:22426530 RGD:9681728 NCBI chr13:78,632,908...78,646,863
Ensembl chr13:78,632,866...78,647,504 		JBrowse link
G Tada2a transcriptional adaptor 2A ISO RGD PMID:22426530 RGD:9681728 NCBI chr10:68,966,502...69,014,149
Ensembl chr10:68,966,502...69,014,105 		JBrowse link
G Tada2b transcriptional adaptor 2B ISO RGD PMID:22426530 RGD:9681728 NCBI chr14:74,279,286...74,290,758
Ensembl chr14:74,279,217...74,290,755 		JBrowse link
G Tada3 transcriptional adaptor 3 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 4:146,510,213...146,521,975
Ensembl chr 4:146,510,246...146,521,590 		JBrowse link
G Taf1 TATA-box binding protein associated factor 1 ISO RGD PMID:23146842 RGD:9681723 NCBI chr  X:66,640,915...66,716,543
Ensembl chr  X:66,640,982...66,716,543 		JBrowse link
G Taf10 TATA-box binding protein associated factor 10 ISO RGD PMID:23146842 PMID:22426530 RGD:9681723, RGD:9681728 NCBI chr 1:160,095,108...160,096,401
Ensembl chr 1:160,095,108...160,096,376 		JBrowse link
G Taf11 TATA-box binding protein associated factor 11 ISO RGD PMID:23146842 RGD:9681723 NCBI chr20:5,955,774...5,963,593
Ensembl chr20:5,955,777...5,961,905 		JBrowse link
G Taf12 TATA-box binding protein associated factor 12 ISO RGD PMID:23146842 PMID:22426530 RGD:9681723, RGD:9681728 NCBI chr 5:144,472,816...144,490,299
Ensembl chr 5:144,472,841...144,488,849 		JBrowse link
G Taf13 TATA-box binding protein associated factor 13 ISO RGD PMID:23146842 RGD:9681723 NCBI chr 2:196,205,219...196,215,882
Ensembl chr 2:196,205,243...196,215,878 		JBrowse link
G Taf15 TATA-box binding protein associated factor 15 ISO RGD PMID:23146842 RGD:9681723 NCBI chr10:68,272,921...68,304,951
Ensembl chr10:68,272,969...68,304,949 		JBrowse link
G Taf2 TATA-box binding protein associated factor 2 ISO RGD PMID:23146842 RGD:9681723 NCBI chr 7:86,422,613...86,479,616
Ensembl chr 7:86,422,613...86,479,616 		JBrowse link
G Taf3 TATA-box binding protein associated factor 3 ISO RGD PMID:23146842 RGD:9681723 NCBI chr17:68,455,389...68,608,367
Ensembl chr17:68,423,909...68,608,367 		JBrowse link
G Taf4 TATA-box binding protein associated factor 4 ISO RGD PMID:23146842 RGD:9681723 NCBI chr 3:167,017,992...167,083,413
Ensembl chr 3:167,017,993...167,083,356 		JBrowse link
G Taf5 TATA-box binding protein associated factor 5 ISO RGD PMID:23146842 RGD:9681723 NCBI chr 1:245,958,428...245,973,914
Ensembl chr 1:245,958,428...245,973,914 		JBrowse link
G Taf5l1 TATA-box binding protein associated factor 5 like 1 ISO RGD PMID:22426530 RGD:9681728 NCBI chr19:51,991,704...52,011,001
Ensembl chr19:51,991,708...52,011,295 		JBrowse link
G Taf6 TATA-box binding protein associated factor 6 ISO RGD PMID:23146842 RGD:9681723 NCBI chr12:17,055,864...17,064,244
Ensembl chr12:17,055,873...17,064,247 		JBrowse link
G Taf6l TATA-box binding protein associated factor 6 like ISO RGD PMID:22426530 RGD:9681728 NCBI chr 1:205,672,147...205,684,721
Ensembl chr 1:205,672,149...205,684,655 		JBrowse link
G Taf7 TATA-box binding protein associated factor 7 ISO RGD PMID:23146842 RGD:9681723 NCBI chr18:29,459,937...29,462,086
Ensembl chr18:29,452,943...29,462,134 		JBrowse link
G Taf8 TATA-box binding protein associated factor 8 ISO RGD PMID:23146842 RGD:9681723 NCBI chr 9:13,491,892...13,511,713
Ensembl chr 9:13,491,937...13,511,717 		JBrowse link
G Taf9 TATA-box binding protein associated factor 9 ISO RGD PMID:23146842 PMID:22426530 RGD:9681723, RGD:9681728 NCBI chr 2:31,794,316...31,798,324
Ensembl chr 2:31,794,142...31,798,769 		JBrowse link
G Tbp TATA box binding protein ISO RGD PMID:24120742 PMID:23146842 RGD:9681721, RGD:9681723 NCBI chr 1:56,463,330...56,480,430
Ensembl chr 1:56,463,618...56,510,016 		JBrowse link
G Trrap transformation/transcription domain-associated protein ISO RGD PMID:22426530 RGD:9681728 NCBI chr12:9,738,006...9,827,708
Ensembl chr12:9,738,006...9,827,674 		JBrowse link
G Usp22 ubiquitin specific peptidase 22 ISO RGD PMID:22426530 RGD:9681728 NCBI chr10:45,828,619...45,855,468
Ensembl chr10:45,828,622...45,855,497 		JBrowse link
G Wdr5 WD repeat domain 5 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 3:10,836,964...10,856,682
Ensembl chr 3:10,837,025...10,856,671 		JBrowse link
G Yeats2 YEATS domain containing 2 ISO RGD PMID:22426530 RGD:9681728 NCBI chr11:80,743,134...80,829,253
Ensembl chr11:80,743,134...80,829,208 		JBrowse link
G Zzz3 zinc finger, ZZ-type containing 3 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 2:241,330,366...241,397,308
Ensembl chr 2:241,331,022...241,397,307 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  pathway 6092
    regulatory pathway 3871
      pathway pertinent to DNA replication and repair, cell cycle, maintenance of genomic integrity, RNA and protein biosynthesis 1752
        transcription pathway 1074
          RNA polymerase transcription pathway 387
            eukaryotic RNA polymerase transcription pathway 387
              RNA polymerase II transcription pathway 318
                RNA polymerase II transcription initiation pathway 58
paths to the root