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ONTOLOGY REPORT - ANNOTATIONS

Term:regulation of transcription initiation by RNA polymerase II
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Accession:GO:0060260 term browser browse the term
Definition:Any process that modulates the rate, frequency or extent of a process involved in starting transcription from an RNA polymerase II promoter.
Synonyms:exact_synonym: regulation of transcription initiation from RNA polymerase II promoter


show annotations for term's descendants           Sort by:
regulation of transcription initiation by RNA polymerase II term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Foxo1 forkhead box O1 involved_in IMP PMID:19483080 UniProt PMID:19483080 RGD:401901209 NCBI chr 2:136,312,168...136,390,603
Ensembl chr 2:136,312,168...136,387,790 		JBrowse link
negative regulation of RNA polymerase II transcription preinitiation complex assembly term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Hmgb1 high mobility group box 1 involved_in ISO (PMID:8006019) RGD PMID:8006019 NCBI chr12:5,972,950...5,979,658
Ensembl chr12:5,901,586...5,978,565
Ensembl chr16:5,901,586...5,978,565 		JBrowse link
G Thra thyroid hormone receptor alpha involved_in ISO
IEA		 (PMID:8524305)
GO_REF:0000107		 RGD
Ensembl		 PMID:8524305 GO_REF:0000107 NCBI chr10:83,701,885...83,729,408
Ensembl chr10:83,700,755...83,729,936 		JBrowse link
negative regulation of transcription initiation by RNA polymerase II term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ctnnbip1 catenin, beta-interacting protein 1 involved_in ISO (MGI:4821083|PMID:11751639) RGD PMID:11751639 MGI:4821083 NCBI chr 5:159,961,961...160,010,942
Ensembl chr 5:159,961,928...160,010,939 		JBrowse link
G Hey2 hes-related family bHLH transcription factor with YRPW motif 2 involved_in ISO (PMID:10692439) RGD PMID:10692439 NCBI chr 1:26,822,131...26,832,218
Ensembl chr 1:26,822,131...26,832,218 		JBrowse link
G Myc MYC proto-oncogene, bHLH transcription factor involved_in ISO (PMID:29203640) RGD PMID:29203640 NCBI chr 7:93,593,705...93,598,633
Ensembl chr 7:93,593,705...93,598,630 		JBrowse link
G Pcid2 PCI domain containing 2 involved_in ISO (MGI:6106288|PMID:29138493) RGD PMID:29138493 MGI:6106288 NCBI chr16:76,423,245...76,448,712
Ensembl chr16:76,423,245...76,448,712 		JBrowse link
G Zfp451 zinc finger protein 451 involved_in ISO
IBA		 (PMID:24324267)
GO_REF:0000033		 RGD
GO_Central		 PMID:24324267 GO_REF:0000033 NCBI chr 9:35,985,441...36,040,991
Ensembl chr 9:35,985,443...36,040,652 		JBrowse link
G Zfp473 zinc finger protein 473 IMP RGD PMID:12748187 RGD:1299608 NCBI chr 1:95,222,683...95,243,328
Ensembl chr 1:95,223,433...95,243,325 		JBrowse link
positive regulation of RNA polymerase II transcription preinitiation complex assembly term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ahr aryl hydrocarbon receptor acts_upstream_of_or_within ISO (PMID:8215422) RGD PMID:8215422 NCBI chr 6:52,234,089...52,271,568
Ensembl chr 6:52,234,089...52,271,568 		JBrowse link
G Cand1 cullin-associated and neddylation-dissociated 1 involved_in IDA PMID:10567521 UniProt PMID:10567521 RGD:8553447 NCBI chr 7:54,681,114...54,719,002
Ensembl chr 7:54,680,900...54,718,993 		JBrowse link
G Creb1 cAMP responsive element binding protein 1 IMP RGD PMID:16891311 RGD:1625706 NCBI chr 9:65,903,511...65,972,562
Ensembl chr 9:65,903,547...65,970,816 		JBrowse link
G Ikzf1 IKAROS family zinc finger 1 acts_upstream_of_or_within ISO MGI:2158690 (PMID:21245044) RGD PMID:21245044 NCBI chr14:86,255,065...86,340,839
Ensembl chr14:86,255,065...86,342,416 		JBrowse link
G Psmc6 proteasome 26S subunit, ATPase 6 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr15:18,542,585...18,564,057
Ensembl chr15:18,542,563...18,564,055 		JBrowse link
G Tp53 tumor protein p53 involved_in ISO
IEA		 (PMID:24289924)
GO_REF:0000107		 RGD
Ensembl		 PMID:24289924 GO_REF:0000107 NCBI chr10:54,300,070...54,311,525
Ensembl chr10:54,300,048...54,311,524 		JBrowse link
G Wnt10b Wnt family member 10B acts_upstream_of_or_within ISO (PMID:19056892) RGD PMID:19056892 NCBI chr 7:129,922,088...129,927,892
Ensembl chr 7:129,922,088...129,927,892 		JBrowse link
positive regulation of transcription initiation by RNA polymerase II term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dhx36 DEAH-box helicase 36 involved_in ISS
ISO		 GO_REF:0000024
(PMID:21993297)		 UniProt
RGD		 PMID:21993297 GO_REF:0000024 NCBI chr 2:146,856,469...146,894,577
Ensembl chr 2:146,856,469...146,894,572 		JBrowse link
G Ercc1 ERCC excision repair 1, endonuclease non-catalytic subunit acts_upstream_of_or_within ISO (PMID:22323595) RGD PMID:22323595 NCBI chr 1:78,971,310...79,007,963
Ensembl chr 1:78,996,390...79,007,963 		JBrowse link
G Ercc6 ERCC excision repair 6, chromatin remodeling factor acts_upstream_of_or_within ISO MGI:1932102|MGI:99135 (PMID:22323595) RGD PMID:22323595 NCBI chr16:7,764,983...7,835,587
Ensembl chr16:7,765,013...7,835,587 		JBrowse link
G Gtf2a1 general transcription factor 2A subunit 1 involved_in ISO (PMID:11030333) RGD PMID:11030333 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 involved_in ISO (PMID:11030333) RGD PMID:11030333 NCBI chr 8:70,662,447...70,675,576
Ensembl chr 8:70,662,428...70,675,569 		JBrowse link
G Hnf1a HNF1 homeobox A involved_in ISO UniProtKB:P35680 (PMID:15355349) RGD PMID:15355349 NCBI chr12:41,638,536...41,672,806
Ensembl chr12:41,645,587...41,672,104 		JBrowse link
G Hnf1b HNF1 homeobox B involved_in ISO
IEA		 (PMID:15355349)
GO_REF:0000107		 RGD
Ensembl		 PMID:15355349 GO_REF:0000107 NCBI chr10:68,735,894...68,789,888
Ensembl chr10:68,735,894...68,789,888 		JBrowse link
G Kat8 lysine acetyltransferase 8 involved_in ISO
ISS		 (PMID:33657400)
GO_REF:0000024		 RGD
UniProt		 PMID:33657400 GO_REF:0000024 NCBI chr 1:182,524,355...182,536,638
Ensembl chr 1:182,515,327...182,536,633 		JBrowse link
G LOC103693281 activated RNA polymerase II transcriptional coactivator p15 pseudogene involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr15:12,858,465...12,858,878
Ensembl chr15:12,858,465...12,858,845
Ensembl chr15:12,858,465...12,858,845 		JBrowse link
G Med1 mediator complex subunit 1 involved_in ISS
ISO		 GO_REF:0000024
(PMID:12218053), (PMID:16314496)		 UniProt
RGD		 PMID:12218053 PMID:16314496 GO_REF:0000024 NCBI chr10:83,145,538...83,189,260
Ensembl chr10:83,145,568...83,189,299 		JBrowse link
G Med12 mediator complex subunit 12 involved_in ISO (PMID:12218053) RGD PMID:12218053 NCBI chr  X:66,404,807...66,427,775
Ensembl chr  X:66,404,760...66,428,387 		JBrowse link
G Med13 mediator complex subunit 13 involved_in ISO (PMID:12218053) RGD PMID:12218053 NCBI chr10:71,086,978...71,176,535
Ensembl chr10:71,090,516...71,177,242 		JBrowse link
G Med14 mediator complex subunit 14 involved_in ISO (PMID:12218053) RGD PMID:12218053 NCBI chr  X:10,036,749...10,127,910
Ensembl chr  X:10,036,805...10,126,240 		JBrowse link
G Med16 mediator complex subunit 16 involved_in ISO (PMID:12218053) RGD PMID:12218053 NCBI chr 7:9,798,641...9,811,172
Ensembl chr 7:9,798,668...9,811,172 		JBrowse link
G Med17 mediator complex subunit 17 involved_in ISO (PMID:12218053) RGD PMID:12218053 NCBI chr 8:12,101,594...12,120,592
Ensembl chr 8:12,101,594...12,120,592 		JBrowse link
G Med24 mediator complex subunit 24 involved_in ISO
IBA
IEA		 (PMID:12218053)
GO_REF:0000033
GO_REF:0000107		 RGD
GO_Central
Ensembl		 PMID:12218053 GO_REF:0000033 GO_REF:0000107 NCBI chr10:83,664,609...83,702,315
Ensembl chr10:83,664,609...83,690,123 		JBrowse link
G Med30 mediator complex subunit 30 involved_in ISO (PMID:12218053) RGD PMID:12218053 NCBI chr 7:84,004,735...84,026,474
Ensembl chr 7:84,004,722...84,026,595 		JBrowse link
G Med4 mediator complex subunit 4 involved_in ISO
IEA		 (PMID:12218053)
GO_REF:0000107		 RGD
Ensembl		 PMID:12218053 GO_REF:0000107 NCBI chr15:48,696,542...48,706,818
Ensembl chr15:48,696,511...48,706,820 		JBrowse link
G Myc MYC proto-oncogene, bHLH transcription factor involved_in ISO (MGI:6377809|PMID:26691508) RGD PMID:26691508 MGI:6377809 NCBI chr 7:93,593,705...93,598,633
Ensembl chr 7:93,593,705...93,598,630 		JBrowse link
G Nfkb1 nuclear factor kappa B subunit 1 involved_in IEA
ISO		 GO_REF:0000107
(PMID:16322095)		 Ensembl
RGD		 PMID:16322095 GO_REF:0000107 NCBI chr 2:224,016,214...224,132,135
Ensembl chr 2:224,016,214...224,110,404 		JBrowse link
G Nfkbia NFKB inhibitor alpha involved_in ISO (PMID:16322095) RGD PMID:16322095 NCBI chr 6:72,858,713...72,861,941
Ensembl chr 6:72,858,712...72,861,941 		JBrowse link
G Nkx2-5 NK2 homeobox 5 involved_in IEA
ISO		 GO_REF:0000107
(MGI:83559|PMID:8887666)		 Ensembl
RGD		 PMID:8887666 GO_REF:0000107 MGI:83559 NCBI chr10:16,340,428...16,347,004
Ensembl chr10:16,344,159...16,346,934 		JBrowse link
G Paxip1 PAX interacting protein 1 involved_in ISO
IBA		 (PMID:17925232)
GO_REF:0000033
(MGI:4354659|PMID:19583951), (MGI:4821506|PMID:20671152)		 RGD
GO_Central		 PMID:17925232 PMID:19583951 PMID:20671152 GO_REF:0000033 MGI:4354659 MGI:4821506 NCBI chr 4:7,525,132...7,576,659
Ensembl chr 4:7,525,004...7,576,548 		JBrowse link
G Pou5f1 POU class 5 homeobox 1 involved_in ISO (MGI:6377809|PMID:26691508) RGD PMID:26691508 MGI:6377809 NCBI chr20:3,223,128...3,227,891
Ensembl chr20:3,223,129...3,227,891 		JBrowse link
G Srf serum response factor involved_in ISO (PMID:8887666) RGD PMID:8887666 NCBI chr 9:14,426,453...14,435,734
Ensembl chr 9:14,426,472...14,435,733 		JBrowse link
G Sub1 SUB1 regulator of transcription involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 2:61,005,646...61,020,486
Ensembl chr 2:61,005,666...61,020,436
Ensembl chr 2:61,005,666...61,020,436 		JBrowse link
G Taf1 TATA-box binding protein associated factor 1 involved_in ISO (PMID:17884155) RGD PMID:17884155 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 involved_in ISO (PMID:17884155) RGD PMID:17884155 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 involved_in ISO (PMID:17884155) RGD PMID:17884155 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 involved_in ISO (PMID:17884155) RGD PMID:17884155 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 involved_in ISO (PMID:17884155) RGD PMID:17884155 NCBI chr 2:196,205,219...196,215,882
Ensembl chr 2:196,205,243...196,215,878 		JBrowse link
G Taf2 TATA-box binding protein associated factor 2 involved_in ISO (PMID:17884155) RGD PMID:17884155 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 involved_in ISO (PMID:17884155) RGD PMID:17884155 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 involved_in ISO (PMID:17884155) RGD PMID:17884155 NCBI chr 3:167,017,992...167,083,413
Ensembl chr 3:167,017,993...167,083,356 		JBrowse link
G Taf4b TATA-box binding protein associated factor 4b involved_in ISO (PMID:17884155) RGD PMID:17884155 NCBI chr18:5,952,737...6,086,408
Ensembl chr18:5,952,769...6,068,307 		JBrowse link
G Taf5 TATA-box binding protein associated factor 5 involved_in ISO (PMID:17884155) RGD PMID:17884155 NCBI chr 1:245,958,428...245,973,914
Ensembl chr 1:245,958,428...245,973,914 		JBrowse link
G Taf6 TATA-box binding protein associated factor 6 involved_in ISO
IEA		 (PMID:11583621), (PMID:18628956)
GO_REF:0000107
(PMID:17884155)		 RGD
Ensembl		 PMID:11583621 PMID:17884155 PMID:18628956 GO_REF:0000107 NCBI chr12:17,055,864...17,064,244
Ensembl chr12:17,055,873...17,064,247 		JBrowse link
G Taf7 TATA-box binding protein associated factor 7 involved_in ISO (PMID:17884155) RGD PMID:17884155 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 involved_in ISO (PMID:17884155) RGD PMID:17884155 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 involved_in ISO
IEA		 (PMID:17884155)
GO_REF:0000107		 RGD
Ensembl		 PMID:17884155 GO_REF:0000107 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 involved_in ISO (PMID:17884155) RGD PMID:17884155 NCBI chr 1:56,463,330...56,480,430
Ensembl chr 1:56,463,618...56,510,016 		JBrowse link
G Xpa XPA, DNA damage recognition and repair factor acts_upstream_of_or_within ISO MGI:1100494 (PMID:22323595) RGD PMID:22323595 NCBI chr 5:60,431,673...60,475,726
Ensembl chr 5:60,431,673...60,475,726 		JBrowse link
G Znhit1 zinc finger, HIT-type containing 1 involved_in ISO (MGI:6106288|PMID:29138493) RGD PMID:29138493 MGI:6106288 NCBI chr12:19,686,606...19,692,880
Ensembl chr12:19,686,148...19,692,880 		JBrowse link
regulation of transcriptional start site selection at RNA polymerase II promoter term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Pwwp2a PWWP domain containing 2A involved_in ISO (MGI:6867108|PMID:33235983) RGD PMID:33235983 MGI:6867108 NCBI chr10:28,155,509...28,195,255
Ensembl chr10:28,155,605...28,194,308 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20413
    metabolic process 11835
      regulation of metabolic process 6641
        regulation of macromolecule metabolic process 6086
          regulation of macromolecule biosynthetic process 5286
            regulation of gene expression 5170
              regulation of DNA-templated transcription 3231
                regulation of transcription by RNA polymerase II 2475
                  regulation of transcription initiation by RNA polymerase II 59
                    negative regulation of transcription initiation by RNA polymerase II + 8
                    positive regulation of transcription initiation by RNA polymerase II + 50
                    regulation of RNA polymerase II transcription preinitiation complex assembly + 9
                    regulation of transcriptional start site selection at RNA polymerase II promoter 1
Path 2
Term Annotations click to browse term
  biological_process 20413
    metabolic process 11835
      organic substance metabolic process 11328
        organic cyclic compound metabolic process 6260
          nucleobase-containing compound metabolic process 5743
            nucleic acid metabolic process 5144
              RNA metabolic process 4542
                RNA biosynthetic process 3411
                  DNA-templated transcription 3388
                    regulation of DNA-templated transcription 3231
                      regulation of transcription by RNA polymerase II 2475
                        regulation of transcription initiation by RNA polymerase II 59
                          negative regulation of transcription initiation by RNA polymerase II + 8
                          positive regulation of transcription initiation by RNA polymerase II + 50
                          regulation of RNA polymerase II transcription preinitiation complex assembly + 9
                          regulation of transcriptional start site selection at RNA polymerase II promoter 1
paths to the root