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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

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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 ISS UniProt GO_REF:0000024 NCBI chrNW_004936565:5,210,014...5,299,213
Ensembl chrNW_004936565:5,210,014...5,302,436 		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) UniProt PMID:8006019 NCBI chrNW_004936472:25,236,728...25,246,585
Ensembl chrNW_004936472:25,236,728...25,246,580 		JBrowse link
G Thra thyroid hormone receptor alpha involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936490:15,188,341...15,206,032
Ensembl chrNW_004936490:15,193,150...15,206,784 		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 Hey2 hes related family bHLH transcription factor with YRPW motif 2 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936639:3,705,225...3,714,696
Ensembl chrNW_004936639:3,703,447...3,716,820 		JBrowse link
G LOC101965661 beta-catenin-interacting protein 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936623:3,696,686...3,729,017
Ensembl chrNW_004936623:3,782,005...3,806,619
Ensembl chrNW_004936623:3,782,005...3,806,619 		JBrowse link
G Myc MYC proto-oncogene, bHLH transcription factor involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936470:20,480,844...20,485,955
Ensembl chrNW_004936470:20,480,829...20,485,965 		JBrowse link
G Pcid2 PCI domain containing 2 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936472:440,440...464,116
Ensembl chrNW_004936472:446,712...465,039 		JBrowse link
G Znf451 zinc finger protein 451 involved_in ISO (PMID:24324267) UniProt PMID:24324267 NCBI chrNW_004936476:4,133,803...4,268,834 JBrowse link
G Znf473 zinc finger protein 473 ISO RGD PMID:12748187 RGD:1299608 NCBI chrNW_004936889:39,812...56,052
Ensembl chrNW_004936889:41,119...57,582 		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) MGI PMID:8215422 NCBI chrNW_004936546:3,737,908...3,783,492
Ensembl chrNW_004936546:3,737,851...3,783,588 		JBrowse link
G Cand1 cullin associated and neddylation dissociated 1 involved_in ISO PMID:10567521 UniProt PMID:10567521 RGD:8553447 NCBI chrNW_004936545:5,217,947...5,255,596
Ensembl chrNW_004936545:5,218,407...5,255,245 		JBrowse link
G Creb1 cAMP responsive element binding protein 1 ISO RGD PMID:16891311 RGD:1625706 NCBI chrNW_004936631:3,721,307...3,785,346
Ensembl chrNW_004936631:3,721,313...3,780,892 		JBrowse link
G Ikzf1 IKAROS family zinc finger 1 acts_upstream_of_or_within ISO (PMID:21245044) MGI PMID:21245044 NCBI chrNW_004936686:1,459,582...1,556,478
Ensembl chrNW_004936686:1,462,145...1,556,451 		JBrowse link
G Psmc6 proteasome 26S subunit, ATPase 6 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004936697:2,122,727...2,143,988
Ensembl chrNW_004936697:2,121,677...2,144,066 		JBrowse link
G Tp53 tumor protein p53 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936595:919,807...935,367
Ensembl chrNW_004936595:919,428...925,425 		JBrowse link
G Wnt10b Wnt family member 10B involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:19056892) Ensembl
MGI		 PMID:19056892 GO_REF:0000107 NCBI chrNW_004936512:6,768,240...6,774,172
Ensembl chrNW_004936512:6,768,240...6,774,172 		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 IEA Ensembl GO_REF:0000107 NCBI chrNW_004936519:1,946,684...1,987,036
Ensembl chrNW_004936519:1,946,652...1,987,070 		JBrowse link
G Ercc1 ERCC excision repair 1, endonuclease non-catalytic subunit involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:22323595) Ensembl
MGI		 PMID:22323595 GO_REF:0000107 NCBI chrNW_004936706:1,854,938...1,867,521
Ensembl chrNW_004936706:1,852,359...1,867,745 		JBrowse link
G Ercc6 ERCC excision repair 6, chromatin remodeling factor involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:22323595) Ensembl
MGI		 PMID:22323595 GO_REF:0000107 NCBI chrNW_004936728:706,499...843,447
Ensembl chrNW_004936728:761,804...844,690 		JBrowse link
G Gtf2a1 general transcription factor IIA subunit 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936488:9,595,344...9,630,357
Ensembl chrNW_004936488:9,600,465...9,630,310 		JBrowse link
G Gtf2a2 general transcription factor IIA subunit 2 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936471:20,636,997...20,651,986
Ensembl chrNW_004936471:20,636,202...20,652,013 		JBrowse link
G Hnf1a HNF1 homeobox A involved_in ISO (PMID:15355349) UniProt PMID:15355349 NCBI chrNW_004936668:62,103...81,549
Ensembl chrNW_004936668:67,535...81,505 		JBrowse link
G Hnf1b HNF1 homeobox B involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936490:649,551...702,448
Ensembl chrNW_004936490:649,546...702,672 		JBrowse link
G Med1 mediator complex subunit 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936490:14,625,201...14,663,184
Ensembl chrNW_004936490:14,625,897...14,657,802 		JBrowse link
G Med12 mediator complex subunit 12 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936762:460,342...483,264
Ensembl chrNW_004936762:460,342...483,195 		JBrowse link
G Med13 mediator complex subunit 13 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936490:3,204,717...3,293,458
Ensembl chrNW_004936490:3,202,827...3,293,458 		JBrowse link
G Med14 mediator complex subunit 14 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936502:7,280,606...7,350,750
Ensembl chrNW_004936502:7,280,534...7,350,435 		JBrowse link
G Med16 mediator complex subunit 16 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936588:352,723...370,898
Ensembl chrNW_004936588:355,353...370,859 		JBrowse link
G Med17 mediator complex subunit 17 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936674:998,036...1,019,937
Ensembl chrNW_004936674:997,259...1,019,953 		JBrowse link
G Med24 mediator complex subunit 24 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936490:15,146,598...15,181,449
Ensembl chrNW_004936490:15,146,579...15,171,118 		JBrowse link
G Med30 mediator complex subunit 30 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936470:28,798,356...28,822,143
Ensembl chrNW_004936470:28,798,649...28,817,176 		JBrowse link
G Med4 mediator complex subunit 4 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936565:1,397,434...1,414,674
Ensembl chrNW_004936565:1,396,088...1,415,248 		JBrowse link
G Myc MYC proto-oncogene, bHLH transcription factor involved_in ISO (MGI:6377809|PMID:26691508) CACAO PMID:26691508 MGI:6377809 NCBI chrNW_004936470:20,480,844...20,485,955
Ensembl chrNW_004936470:20,480,829...20,485,965 		JBrowse link
G Nfkb1 nuclear factor kappa B subunit 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936520:733,760...850,563
Ensembl chrNW_004936520:733,668...829,435 		JBrowse link
G Nfkbia NFKB inhibitor alpha involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936494:9,537,793...9,541,187
Ensembl chrNW_004936494:9,537,008...9,541,612 		JBrowse link
G Nkx2-5 NK2 homeobox 5 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936609:2,406,004...2,408,980
Ensembl chrNW_004936609:2,406,004...2,409,046 		JBrowse link
G Paxip1 PAX interacting protein 1 involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chrNW_004936527:9,440,129...9,488,215
Ensembl chrNW_004936527:9,440,036...9,484,245 		JBrowse link
G Pou5f1 POU class 5 homeobox 1 involved_in ISO (MGI:6377809|PMID:26691508) CACAO PMID:26691508 MGI:6377809 NCBI chrNW_004936837:827,568...838,933 JBrowse link
G Srf serum response factor involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936476:16,779,941...16,789,499
Ensembl chrNW_004936476:16,782,233...16,789,130 		JBrowse link
G Sub1 SUB1 regulator of transcription involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004936518:8,236,026...8,249,007
Ensembl chrNW_004936518:8,233,338...8,249,549 		JBrowse link
G Taf1 TATA-box binding protein associated factor 1 involved_in ISO (PMID:17884155) ComplexPortal PMID:17884155 NCBI chrNW_004936762:189,710...271,759 JBrowse link
G Taf10 TATA-box binding protein associated factor 10 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936842:667,960...669,367
Ensembl chrNW_004936842:667,936...669,441 		JBrowse link
G Taf11 TATA-box binding protein associated factor 11 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936476:24,272,406...24,285,577
Ensembl chrNW_004936476:24,271,895...24,285,612 		JBrowse link
G Taf12 TATA-box binding protein associated factor 12 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936474:12,695,508...12,719,384
Ensembl chrNW_004936474:12,693,018...12,720,136 		JBrowse link
G Taf13 TATA-box binding protein associated factor 13 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936704:613,261...623,407
Ensembl chrNW_004936704:613,261...623,401 		JBrowse link
G Taf2 TATA-box binding protein associated factor 2 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936470:26,871,865...26,951,804
Ensembl chrNW_004936470:26,871,847...26,951,806 		JBrowse link
G Taf3 TATA-box binding protein associated factor 3 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936484:6,834,935...7,002,167
Ensembl chrNW_004936484:6,834,103...7,002,198 		JBrowse link
G Taf4 TATA-box binding protein associated factor 4 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936514:9,694,509...9,722,101
Ensembl chrNW_004936514:9,694,509...9,722,107 		JBrowse link
G Taf4b TATA-box binding protein associated factor 4b involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936550:5,396,239...5,527,540
Ensembl chrNW_004936550:5,396,188...5,527,556 		JBrowse link
G Taf5 TATA-box binding protein associated factor 5 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936600:2,683,045...2,700,272
Ensembl chrNW_004936600:2,679,807...2,700,274 		JBrowse link
G Taf6 TATA-box binding protein associated factor 6 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936543:250,174...256,405
Ensembl chrNW_004936543:247,096...256,629 		JBrowse link
G Taf7 TATA-box binding protein associated factor 7 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936504:12,824,928...12,827,238
Ensembl chrNW_004936504:12,824,953...12,827,214 		JBrowse link
G Taf8 TATA-box binding protein associated factor 8 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936476:17,779,474...17,798,465
Ensembl chrNW_004936476:17,779,242...17,798,505 		JBrowse link
G Taf9 TATA-box binding protein associated factor 9 involved_in ISO (PMID:17884155) ComplexPortal PMID:17884155 NCBI chrNW_004936480:252,435...256,609
Ensembl chrNW_004936480:252,435...256,609 		JBrowse link
G Tbp TATA-box binding protein involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004937098:46,572...65,304
Ensembl chrNW_004937098:46,248...65,441 		JBrowse link
G Xpa XPA, DNA damage recognition and repair factor acts_upstream_of_or_within ISO (PMID:22323595) MGI PMID:22323595 NCBI chrNW_004936524:6,467,365...6,493,556
Ensembl chrNW_004936524:6,465,104...6,493,610 		JBrowse link
G Znhit1 zinc finger HIT-type containing 1 involved_in ISO (MGI:6106288|PMID:29138493) UniProt PMID:29138493 MGI:6106288 NCBI chrNW_004936543:1,098,095...1,104,731
Ensembl chrNW_004936543:1,097,588...1,105,162 		JBrowse link
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 Atf7ip activating transcription factor 7 interacting protein involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936587:2,922,855...3,026,773
Ensembl chrNW_004936587:2,919,666...3,026,837 		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) UniProt PMID:33235983 MGI:6867108 NCBI chrNW_004936515:3,399,339...3,436,003 JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 15871
    metabolic process 9527
      regulation of metabolic process 5499
        regulation of macromolecule metabolic process 4971
          regulation of macromolecule biosynthetic process 4233
            regulation of gene expression 4121
              regulation of DNA-templated transcription 2632
                regulation of transcription by RNA polymerase II 1967
                  regulation of transcription initiation by RNA polymerase II 58
                    negative regulation of transcription initiation by RNA polymerase II + 8
                    positive regulation of transcription initiation by RNA polymerase II + 48
                    regulation of RNA polymerase II transcription preinitiation complex assembly + 10
                    regulation of transcriptional start site selection at RNA polymerase II promoter 1
Path 2
Term Annotations click to browse term
  biological_process 15871
    cellular process 15001
      cellular metabolic process 8291
        cellular aromatic compound metabolic process 4861
          nucleobase-containing compound metabolic process 4641
            nucleic acid metabolic process 4163
              RNA metabolic process 3641
                RNA biosynthetic process 2778
                  DNA-templated transcription 2754
                    transcription by RNA polymerase II 2058
                      transcription initiation at RNA polymerase II promoter 133
                        regulation of transcription initiation by RNA polymerase II 58
                          negative regulation of transcription initiation by RNA polymerase II + 8
                          positive regulation of transcription initiation by RNA polymerase II + 48
                          regulation of RNA polymerase II transcription preinitiation complex assembly + 10
                          regulation of transcriptional start site selection at RNA polymerase II promoter 1
paths to the root