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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 chr 3:63,766,480...63,906,913
Ensembl chr 3:65,194,703...65,280,879 		JBrowse link
G ATXN7L3 ataxin 7 like 3 ISO RGD PMID:22426530 RGD:9681728 NCBI chr17:13,197,939...13,206,017
Ensembl chr17:13,362,312...13,369,667 		JBrowse link
G CCNH cyclin H ISO RGD PMID:21592869 RGD:9681726 NCBI chr 5:27,958,859...27,995,815
Ensembl chr 5:28,094,064...28,116,149 		JBrowse link
G CDK7 cyclin dependent kinase 7 ISO RGD PMID:21592869 RGD:9681726 NCBI chr 5:44,723,268...44,765,711
Ensembl chr 5:46,292,838...46,334,912 		JBrowse link
G DR1 down-regulator of transcription 1 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 1:96,014,758...96,031,402
Ensembl chr 1:94,746,109...94,762,736 		JBrowse link
G ENY2 ENY2 transcription and export complex 2 subunit ISO RGD PMID:22426530 RGD:9681728 NCBI chr 8:105,985,043...105,996,686
Ensembl chr 8:108,129,883...108,141,478 		JBrowse link
G ERCC2 ERCC excision repair 2, TFIIH core complex helicase subunit ISO RGD PMID:21592869 RGD:9681726 NCBI chr19:42,298,927...42,319,816
Ensembl chr19:50,897,004...50,915,819 		JBrowse link
G ERCC3 ERCC excision repair 3, TFIIH core complex helicase subunit ISO RGD PMID:21592869 RGD:9681726 NCBI chr2B:32,983,492...33,020,492
Ensembl chr2B:127,922,483...127,959,372 		JBrowse link
G ERCC5 ERCC excision repair 5, endonuclease ISO RGD PMID:21592869 RGD:9681726 NCBI chr13:84,005,950...84,036,710
Ensembl chr13:103,096,344...103,174,182 		JBrowse link
G GTF2A1 general transcription factor IIA subunit 1 ISO RGD PMID:24120742 RGD:9681721 NCBI chr14:61,751,492...61,797,083
Ensembl chr14:80,951,886...80,996,777 		JBrowse link
G GTF2A2 general transcription factor IIA subunit 2 ISO RGD PMID:24120742 RGD:9681721 NCBI chr15:38,608,360...38,627,156
Ensembl chr15:56,913,452...56,932,052 		JBrowse link
G GTF2B general transcription factor IIB ISO RGD PMID:24120742 RGD:9681721 NCBI chr 1:91,568,296...91,607,467
Ensembl chr 1:90,319,637...90,359,134 		JBrowse link
G GTF2E1 general transcription factor IIE subunit 1 ISO RGD PMID:24120742 RGD:9681721 NCBI chr 3:117,850,234...117,890,719
Ensembl chr 3:124,760,926...124,801,230 		JBrowse link
G GTF2E2 general transcription factor IIE subunit 2 ISO RGD PMID:24120742 RGD:9681721 NCBI chr 8:29,881,879...29,961,554
Ensembl chr 8:27,071,634...27,151,147 		JBrowse link
G GTF2F1 general transcription factor IIF subunit 1 ISO RGD PMID:24120742 RGD:9681721 NCBI chr19:5,401,090...5,414,142
Ensembl chr19:6,323,780...6,336,215 		JBrowse link
G GTF2F2 general transcription factor IIF subunit 2 ISO RGD PMID:24120742 RGD:9681721 NCBI chr13:26,286,305...26,452,302
Ensembl chr 3:197,619,461...197,784,798 		JBrowse link
G GTF2H1 general transcription factor IIH subunit 1 ISO RGD PMID:21592869 RGD:9681726 NCBI chr11:18,357,594...18,402,268
Ensembl chr11:18,042,824...18,086,898 		JBrowse link
G GTF2H3 general transcription factor IIH subunit 3 ISO RGD PMID:21592869 RGD:9681726 NCBI chr12:121,218,813...121,246,807
Ensembl chr12:125,445,381...125,473,763 		JBrowse link
G GTF2H4 general transcription factor IIH subunit 4 ISO RGD PMID:21592869 RGD:9681726 NCBI chr 6:30,653,398...30,659,316
Ensembl chr 6:31,521,501...31,527,456 		JBrowse link
G GTF2H5 general transcription factor IIH subunit 5 ISO RGD PMID:21592869 RGD:9681726 Ensembl chr 6:158,126,665...158,153,663 JBrowse link
G HCFC2 host cell factor C2 ISO RGD PMID:22426530 RGD:9681728 NCBI chr12:101,640,561...101,682,283
Ensembl chr12:105,036,716...105,074,532 		JBrowse link
G KAT14 lysine acetyltransferase 14 ISO RGD PMID:22426530 RGD:9681728 NCBI chr20:18,106,400...18,152,231
Ensembl chr20:18,082,402...18,128,470 		JBrowse link
G KAT2A lysine acetyltransferase 2A ISO RGD PMID:22426530 RGD:9681728 NCBI chr17:15,194,414...15,202,818
Ensembl chr17:15,416,075...15,424,197 		JBrowse link
G KAT2B lysine acetyltransferase 2B ISO RGD PMID:22426530 RGD:9681728 NCBI chr 3:19,956,067...20,070,637
Ensembl chr 3:20,286,865...20,400,770 		JBrowse link
G MBIP MAP3K12 binding inhibitory protein 1 ISO RGD PMID:22426530 RGD:9681728 NCBI chr14:17,052,270...17,074,609
Ensembl chr14:35,231,398...35,253,746 		JBrowse link
G MNAT1 MNAT1 component of CDK activating kinase ISO RGD PMID:21592869 RGD:9681726 NCBI chr14:41,342,530...41,576,690
Ensembl chr14:59,603,209...59,835,408 		JBrowse link
G POLE3 DNA polymerase epsilon 3, accessory subunit ISO RGD PMID:22426530 RGD:9681728 NCBI chr 9:84,509,237...84,512,651
Ensembl chr 9:112,879,047...112,882,951 		JBrowse link
G SGF29 SAGA complex associated factor 29 ISO RGD PMID:22426530 RGD:9681728 Ensembl chr16:29,030,587...29,068,795 JBrowse link
G SUPT20H SPT20 homolog, SAGA complex component ISO RGD PMID:22426530 RGD:9681728 NCBI chr13:18,217,142...18,268,937
Ensembl chr13:36,647,544...36,687,513 		JBrowse link
G SUPT3H SPT3 homolog, SAGA and STAGA complex component ISO RGD PMID:22426530 RGD:9681728 NCBI chr 6:44,406,978...44,960,039 JBrowse link
G SUPT7L SPT7 like, STAGA complex subunit gamma ISO RGD PMID:22426530 RGD:9681728 NCBI chr2A:27,648,724...27,661,760
Ensembl chr2A:27,734,763...27,747,802 		JBrowse link
G TADA1 transcriptional adaptor 1 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 1:142,273,856...142,296,775
Ensembl chr 1:146,061,155...146,083,348 		JBrowse link
G TADA2A transcriptional adaptor 2A ISO RGD PMID:22426530 RGD:9681728 NCBI chr17:19,595,055...19,670,090
Ensembl chr17:19,897,659...19,967,926 		JBrowse link
G TADA2B transcriptional adaptor 2B ISO RGD PMID:22426530 RGD:9681728 Ensembl chr 4:7,110,732...7,125,100 JBrowse link
G TADA3 transcriptional adaptor 3 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 3:9,731,462...9,744,513
Ensembl chr 3:9,969,550...9,982,389 		JBrowse link
G TAF1 TATA-box binding protein associated factor 1 ISO RGD PMID:23146842 RGD:9681723 NCBI chr  X:60,630,137...60,729,904
Ensembl chr  X:70,684,217...70,782,323 		JBrowse link
G TAF10 TATA-box binding protein associated factor 10 ISO RGD PMID:22426530 PMID:23146842 RGD:9681723 RGD:9681728 NCBI chr11:6,742,862...6,744,260 JBrowse link
G TAF11 TATA-box binding protein associated factor 11 ISO RGD PMID:23146842 RGD:9681723 NCBI chr 6:34,439,369...34,449,501
Ensembl chr 6:35,536,614...35,546,805 		JBrowse link
G TAF12 TATA-box binding protein associated factor 12 ISO RGD PMID:22426530 PMID:23146842 RGD:9681723 RGD:9681728 NCBI chr 1:27,874,675...27,914,672 JBrowse link
G TAF13 TATA-box binding protein associated factor 13 ISO RGD PMID:23146842 RGD:9681723 NCBI chr 1:111,441,202...111,452,773
Ensembl chr 1:110,604,654...110,617,808 		JBrowse link
G TAF15 TATA-box binding protein associated factor 15 ISO RGD PMID:23146842 RGD:9681723 NCBI chr17:20,948,186...20,985,925 JBrowse link
G TAF2 TATA-box binding protein associated factor 2 ISO RGD PMID:23146842 RGD:9681723 NCBI chr 8:116,421,520...116,523,138
Ensembl chr 8:119,170,327...119,271,405 		JBrowse link
G TAF3 TATA-box binding protein associated factor 3 ISO RGD PMID:23146842 RGD:9681723 NCBI chr10:7,851,294...8,047,100 JBrowse link
G TAF4 TATA-box binding protein associated factor 4 ISO RGD PMID:23146842 RGD:9681723 NCBI chr20:58,341,086...58,431,623 JBrowse link
G TAF5 TATA-box binding protein associated factor 5 ISO RGD PMID:23146842 RGD:9681723 NCBI chr10:99,965,537...99,986,955
Ensembl chr10:103,426,334...103,447,046 		JBrowse link
G TAF5L TATA-box binding protein associated factor 5 like ISO RGD PMID:22426530 RGD:9681728 NCBI chr 1:205,137,767...205,170,704
Ensembl chr 1:210,168,379...210,200,903 		JBrowse link
G TAF6 TATA-box binding protein associated factor 6 ISO RGD PMID:23146842 RGD:9681723 NCBI chr 7:92,142,646...92,154,951
Ensembl chr 7:105,575,861...105,588,142 		JBrowse link
G TAF6L TATA-box binding protein associated factor 6 like ISO RGD PMID:22426530 RGD:9681728 NCBI chr11:58,126,480...58,142,752
Ensembl chr11:61,485,259...61,495,877 		JBrowse link
G TAF7 TATA-box binding protein associated factor 7 ISO RGD PMID:23146842 RGD:9681723 NCBI chr 5:136,680,554...136,682,862 JBrowse link
G TAF8 TATA-box binding protein associated factor 8 ISO RGD PMID:23146842 RGD:9681723 NCBI chr 6:41,631,483...41,672,988
Ensembl chr 6:42,933,107...42,978,271 		JBrowse link
G TAF9 TATA-box binding protein associated factor 9 ISO RGD PMID:22426530 PMID:23146842 RGD:9681723 RGD:9681728 NCBI chr 5:44,630,503...44,635,760 JBrowse link
G TBP TATA-box binding protein ISO RGD PMID:23146842 PMID:24120742 RGD:9681721 RGD:9681723 NCBI chr 6:168,714,214...168,732,744
Ensembl chr 6:173,800,240...173,826,909 		JBrowse link
G TRRAP transformation/transcription domain associated protein ISO RGD PMID:22426530 RGD:9681728 NCBI chr 7:90,845,518...90,981,700
Ensembl chr 7:104,351,320...104,486,722 		JBrowse link
G USP22 ubiquitin specific peptidase 22 ISO RGD PMID:22426530 RGD:9681728 NCBI chr17:30,606,845...30,650,281
Ensembl chr17:35,468,177...35,511,672 		JBrowse link
G WDR5 WD repeat domain 5 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 9:105,241,415...105,265,925
Ensembl chr 9:133,848,185...133,872,889 		JBrowse link
G YEATS2 YEATS domain containing 2 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 3:180,736,213...180,847,545
Ensembl chr 3:188,903,615...189,016,942 		JBrowse link
G ZZZ3 zinc finger ZZ-type containing 3 ISO RGD PMID:22426530 RGD:9681728 NCBI chr 1:76,783,387...76,902,711
Ensembl chr 1:78,866,284...78,986,872 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  pathway 4063
    regulatory pathway 2507
      pathway pertinent to DNA replication and repair, cell cycle, maintenance of genomic integrity, RNA and protein biosynthesis 1338
        transcription pathway 927
          RNA polymerase transcription pathway 348
            eukaryotic RNA polymerase transcription pathway 348
              RNA polymerase II transcription pathway 279
                RNA polymerase II transcription initiation pathway 57
paths to the root