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ONTOLOGY REPORT - ANNOTATIONS


Term:DNA-templated transcription, initiation
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Accession:GO:0006352 term browser browse the term
Definition:Any process involved in the assembly of the RNA polymerase preinitiation complex (PIC) at the core promoter region of a DNA template, resulting in the subsequent synthesis of RNA from that promoter. The initiation phase includes PIC assembly and the formation of the first few bonds in the RNA chain, including abortive initiation, which occurs when the first few nucleotides are repeatedly synthesized and then released. The initiation phase ends just before and does not include promoter clearance, or release, which is the transition between the initiation and elongation phases of transcription.
Comment:Note that promoter clearance is represented as a separate step, not part_of either initiation or elongation.
Synonyms:exact_synonym: DNA-dependent RNA polymerase complex assembly at promoter;   initiation of DNA-dependent transcription
 related_synonym: transcription initiation factor activity;   transcription initiation, DNA-dependent


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DNA-templated transcription, initiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Brf1 BRF1, RNA polymerase III transcription initiation factor subunit IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 6:137,762,230...137,808,573
Ensembl chr 6:137,765,122...137,808,303
JBrowse link
G Brf2 BRF2, RNA polymerase III transcription initiation factor subunit IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr16:69,089,955...69,094,678
Ensembl chr16:69,089,955...69,094,680
JBrowse link
G Gtf2b general transcription factor IIB IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 2:248,709,433...248,727,741
Ensembl chr 2:248,715,281...248,727,741
JBrowse link
G Hist1h2ao histone cluster 1, H2ao IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr17:44,744,534...44,744,931
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr 2:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
JBrowse link
G Hist1h4b histone cluster 1 H4 family member B IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr17:44,522,144...44,526,587
Ensembl chr17:44,522,140...44,526,583
JBrowse link
G Hist1h4m histone cluster 1, H4m IEA GO_REF:0000002 InterPro GO_REF:0000002 Ensembl chr17:44,815,684...44,815,995 JBrowse link
G Hist2h4 histone cluster 2, H4 IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 2:198,411,955...198,412,350
Ensembl chr 2:198,411,955...198,412,350
JBrowse link
G Hist2h4a histone cluster 2 H4 family member A IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 4:170,800,539...170,800,979
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr 2:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
JBrowse link
G LOC100912489 histone H4-like IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 4:170,144,871...170,145,311
Ensembl chr 4:170,144,951...170,145,262
JBrowse link
G LOC100912564 histone H4-like IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 4:170,182,634...170,183,074
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr 2:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr17:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
Ensembl chr 4:43,770,250...43,770,561
JBrowse link
G Myc MYC proto-oncogene, bHLH transcription factor IDA RGD PMID:3306601 RGD:69897 NCBI chr 7:102,586,313...102,591,240
Ensembl chr 7:102,586,313...102,591,240
JBrowse link
G Ncoa6 nuclear receptor coactivator 6 IEA
ISO
GO_REF:0000107
(PMID:10567404)
Ensembl
RGD
PMID:10567404 GO_REF:0000107 NCBI chr 3:150,919,317...150,990,391
Ensembl chr 3:150,919,317...150,960,030
JBrowse link
G RGD1562378 histone H4 variant H4-v.1 IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 4:170,762,862...170,763,962
Ensembl chr 4:170,763,605...170,763,916
JBrowse link
G Rrn3 RRN3 homolog, RNA polymerase I transcription factor ISO (MGI:MGI:63283|PMID:8413268) RGD PMID:8413268 MGI:MGI:63283 NCBI chr10:3,170,387...3,214,648
Ensembl chr10:3,170,742...3,214,655
JBrowse link
G Rsf1 remodeling and spacing factor 1 ISO (PMID:9836642) RGD PMID:9836642 NCBI chr 1:162,549,222...162,671,962
Ensembl chr 1:162,549,420...162,662,170
JBrowse link
G Smarca5 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5 ISO (PMID:9836642) RGD PMID:9836642 NCBI chr19:30,936,703...30,969,454
Ensembl chr19:30,936,703...30,969,454
JBrowse link
G Taf10 TATA-box binding protein associated factor 10 ISO (PMID:9212049), (PMID:9603525) RGD PMID:9212049, PMID:9603525 NCBI chr 1:170,585,160...170,586,428
Ensembl chr 1:170,585,167...170,586,603
JBrowse link
G Taf12 TATA-box binding protein associated factor 12 ISO (PMID:9603525) RGD PMID:9603525 NCBI chr 5:150,459,701...150,476,521
Ensembl chr 5:150,459,713...150,475,186
JBrowse link
G Taf4 TATA-box binding protein associated factor 4 ISO (PMID:9603525) RGD PMID:9603525 NCBI chr 3:175,300,842...175,364,655
Ensembl chr 3:175,301,879...175,327,689
JBrowse link
G Taf5 TATA-box binding protein associated factor 5 ISO (PMID:9603525) RGD PMID:9603525 NCBI chr 1:266,844,480...266,859,965
Ensembl chr 1:266,844,480...266,859,965
JBrowse link
G Taf6 TATA-box binding protein associated factor 6 ISO (PMID:9603525) RGD PMID:9603525 NCBI chr12:19,320,269...19,328,706
Ensembl chr12:19,320,271...19,328,637
JBrowse link
G Taf7 TATA-box binding protein associated factor 7 ISO (PMID:9603525) RGD PMID:9603525 NCBI chr18:30,779,149...30,781,297
Ensembl chr18:30,779,150...30,781,292
JBrowse link
G Taf9 TATA-box binding protein associated factor 9 IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 2:30,664,407...30,668,414
Ensembl chr 2:30,664,639...30,668,414
JBrowse link
G Taf9b TATA-box binding protein associated factor 9b IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr  X:77,281,234...77,295,238
Ensembl chr  X:77,281,210...77,295,426
JBrowse link
G Tbp TATA box binding protein IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 1:57,491,381...57,509,335
Ensembl chr 1:57,491,643...57,508,449
JBrowse link
G Tbpl1 TATA-box binding protein like 1 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 1:23,977,154...24,002,512
Ensembl chr 1:23,977,688...24,002,506
JBrowse link
G Tbpl2 TATA box binding protein-like 2 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 3:1,095,883...1,116,677
Ensembl chr 3:1,095,883...1,116,677
JBrowse link
DNA-templated transcription open complex formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Taf8 TATA-box binding protein associated factor 8 ISO
IEA
(PMID:14580349)
GO_REF:0000107
RGD
Ensembl
PMID:14580349 GO_REF:0000107 NCBI chr 9:15,513,048...15,532,992
Ensembl chr 9:15,513,063...15,529,800
JBrowse link
negative regulation of DNA-templated transcription, initiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Morc1 MORC family CW-type zinc finger 1 ISO MGI:MGI:1857787 (MGI:MGI:5694015|PMID:25503965) RGD PMID:25503965 MGI:MGI:5694015 NCBI chr11:54,762,654...55,044,581
Ensembl chr11:54,762,654...55,044,581
JBrowse link
G Thra thyroid hormone receptor alpha ISO (PMID:8524305) RGD PMID:8524305 NCBI chr10:86,657,285...86,684,935
Ensembl chr10:86,657,285...86,684,933
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 ISO (PMID:8006019) RGD PMID:8006019 NCBI chr12:7,082,529...7,090,246
Ensembl chr16:37,500,017...37,502,237
JBrowse link
G Thra thyroid hormone receptor alpha IEA
ISO
GO_REF:0000107
(PMID:8524305)
Ensembl
RGD
PMID:8524305 GO_REF:0000107 NCBI chr10:86,657,285...86,684,935
Ensembl chr10:86,657,285...86,684,933
JBrowse link
negative regulation of transcription initiation from RNA polymerase II promoter term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ctnnbip1 catenin, beta-interacting protein 1 ISO (MGI:MGI:4821083|PMID:11751639) RGD PMID:11751639 MGI:MGI:4821083 NCBI chr 5:166,464,170...166,513,030
Ensembl chr 5:166,464,252...166,513,027
JBrowse link
G Hey2 hes-related family bHLH transcription factor with YRPW motif 2 ISO (PMID:10692439) RGD PMID:10692439 NCBI chr 1:29,191,170...29,201,257
Ensembl chr 1:29,191,192...29,201,531
JBrowse link
G Zfp451 zinc finger protein 451 ISO (PMID:24324267) RGD PMID:24324267 NCBI chr 9:38,395,464...38,451,585
Ensembl chr 9:38,396,449...38,451,656
JBrowse link
positive regulation of DNA-templated transcription, initiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Bclaf1 BCL2-associated transcription factor 1 ISO (PMID:17938203) RGD PMID:17938203 NCBI chr 1:15,799,753...15,828,838
Ensembl chr 1:15,782,477...15,860,624
JBrowse link
G Cebpa CCAAT/enhancer binding protein alpha ISO (PMID:28186500) RGD PMID:28186500 NCBI chr 1:91,363,492...91,366,164
Ensembl chr 1:91,363,492...91,366,164
JBrowse link
G Ctnnb1 catenin beta 1 ISO
IEA
(MGI:MGI:5428344|PMID:22723415)
GO_REF:0000107
RGD
Ensembl
PMID:22723415 GO_REF:0000107, MGI:MGI:5428344 NCBI chr 8:129,601,511...129,628,378
Ensembl chr 8:129,617,812...129,627,372
JBrowse link
G Fosl1 FOS like 1, AP-1 transcription factor subunit ISO (PMID:23027619) RGD PMID:23027619 NCBI chr 1:220,826,560...220,835,066
Ensembl chr 1:220,826,560...220,835,066
JBrowse link
G Jun Jun proto-oncogene, AP-1 transcription factor subunit ISO (PMID:23027619) RGD PMID:23027619 NCBI chr 5:114,011,184...114,014,277
Ensembl chr 5:114,011,189...114,014,277
JBrowse link
G Mitf melanocyte inducing transcription factor ISO (PMID:12204775), (PMID:8995290) RGD PMID:8995290, PMID:12204775 NCBI chr 4:130,172,484...130,425,496
Ensembl chr 4:130,172,727...130,425,532
JBrowse link
G Setx senataxin ISO (PMID:21700224) RGD PMID:21700224 NCBI chr 3:7,680,430...7,731,815
Ensembl chr 3:7,686,503...7,730,539
JBrowse link
G Twist1 twist family bHLH transcription factor 1 ISO (PMID:17332325) RGD PMID:17332325 NCBI chr 6:53,401,241...53,403,235
Ensembl chr 6:53,401,109...53,403,214
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 ISO (MGI:MGI:62922|PMID:8215422) RGD PMID:8215422 MGI:MGI:62922 NCBI chr 6:54,963,990...55,001,806
Ensembl chr 6:54,963,990...55,001,464
JBrowse link
G Cand1 cullin-associated and neddylation-dissociated 1 IDA PMID:10567521 UniProt PMID:10567521 RGD:8553447 NCBI chr 7:62,124,362...62,162,451
Ensembl chr 7:62,124,362...62,162,453
JBrowse link
G Creb1 cAMP responsive element binding protein 1 IMP RGD PMID:16891311 RGD:1625706 NCBI chr 9:71,229,753...71,298,994
Ensembl chr 9:71,230,108...71,293,435
JBrowse link
G Esr1 estrogen receptor 1 IEA
ISO
GO_REF:0000107
(PMID:9841876)
Ensembl
RGD
PMID:9841876 GO_REF:0000107 NCBI chr 1:41,192,029...41,594,799
Ensembl chr 1:41,192,824...41,594,796
JBrowse link
G Ikzf1 IKAROS family zinc finger 1 ISO MGI:MGI:2158690 (MGI:MGI:5317044|PMID:21245044) RGD PMID:21245044 MGI:MGI:5317044 NCBI chr14:91,782,281...91,867,828
Ensembl chr14:91,782,354...91,867,424
JBrowse link
G Psmc2 proteasome 26S subunit, ATPase 2 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 4:9,867,132...9,881,383
Ensembl chr 4:9,867,101...9,881,484
JBrowse link
G Psmc3 proteasome 26S subunit, ATPase 3 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 3:79,876,938...79,882,319
Ensembl chr 3:79,876,938...79,882,319
JBrowse link
G Psmc4 proteasome 26S subunit, ATPase 4 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 1:84,978,220...84,986,536
Ensembl chr 1:84,978,206...84,986,581
JBrowse link
G Psmc5 proteasome 26S subunit, ATPase 5 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr10:94,445,877...94,451,811
Ensembl chr10:94,445,877...94,451,811
JBrowse link
G Psmc6 proteasome 26S subunit, ATPase 6 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr15:19,667,453...19,688,916
Ensembl chr15:19,667,453...19,688,914
JBrowse link
G Tp53 tumor protein p53 ISO (PMID:24289924) RGD PMID:24289924 NCBI chr10:56,186,299...56,198,449
Ensembl chr10:56,187,020...56,198,449
JBrowse link
G Wnt10b Wnt family member 10B ISO (MGI:MGI:3820325|PMID:19056892) RGD PMID:19056892 MGI:MGI:3820325 NCBI chr 7:140,448,284...140,466,159
Ensembl chr 7:140,448,465...140,454,268
JBrowse link
positive regulation of transcription initiation from RNA polymerase II promoter term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dhx36 DEAH-box helicase 36 ISS
ISO
GO_REF:0000024
(PMID:21993297)
UniProt
RGD
PMID:21993297 GO_REF:0000024 NCBI chr 2:152,785,844...152,824,549
Ensembl chr 2:152,785,844...152,824,547
JBrowse link
G Ercc1 ERCC excision repair 1, endonuclease non-catalytic subunit ISO (MGI:MGI:5314556|PMID:22323595) RGD PMID:22323595 MGI:MGI:5314556 NCBI chr 1:80,256,973...80,268,198
Ensembl chr 1:80,256,973...80,268,198
JBrowse link
G Ercc6 ERCC excision repair 6, chromatin remodeling factor ISO MGI:MGI:1932102|MGI:MGI:99135 (MGI:MGI:5314556|PMID:22323595) RGD PMID:22323595 MGI:MGI:5314556 NCBI chr16:8,734,028...8,804,610
Ensembl chr16:8,734,035...8,804,610
JBrowse link
G Gtf2b general transcription factor IIB ISS
ISO
IEA
GO_REF:0000024
(PMID:12931194), (PMID:9420329)
GO_REF:0000107
UniProt
RGD
Ensembl
PMID:9420329, PMID:12931194 GO_REF:0000024, GO_REF:0000107 NCBI chr 2:248,709,433...248,727,741
Ensembl chr 2:248,715,281...248,727,741
JBrowse link
G Hnf1a HNF1 homeobox A ISO UniProtKB:P35680 (PMID:15355349) RGD PMID:15355349 NCBI chr12:47,407,811...47,433,342
Ensembl chr12:47,407,811...47,433,342
JBrowse link
G Hnf1b HNF1 homeobox B ISO (PMID:15355349) RGD PMID:15355349 NCBI chr10:71,159,863...71,218,902
Ensembl chr10:71,159,869...71,218,902
JBrowse link
G Irf8 interferon regulatory factor 8 NOT ISO (MGI:MGI:5448615|PMID:22942423) RGD PMID:22942423 MGI:MGI:5448615 NCBI chr19:54,314,859...54,336,643
Ensembl chr19:54,314,865...54,336,640
JBrowse link
G Med1 mediator complex subunit 1 ISO
ISS
(PMID:12218053), (PMID:16314496)
GO_REF:0000024
RGD
UniProt
PMID:12218053, PMID:16314496 GO_REF:0000024 NCBI chr10:86,101,560...86,145,271
Ensembl chr10:86,103,600...86,144,880
JBrowse link
G Med12 mediator complex subunit 12 ISO
IEA
(PMID:12218053)
GO_REF:0000107
RGD
Ensembl
PMID:12218053 GO_REF:0000107 NCBI chr  X:71,174,653...71,197,812
Ensembl chr  X:71,174,699...71,197,812
JBrowse link
G Med13 mediator complex subunit 13 ISO
IEA
(PMID:12218053)
GO_REF:0000107
RGD
Ensembl
PMID:12218053 GO_REF:0000107 NCBI chr10:73,702,327...73,787,084
Ensembl chr10:73,702,327...73,787,083
JBrowse link
G Med14 mediator complex subunit 14 ISO
IEA
(PMID:12218053)
GO_REF:0000107
RGD
Ensembl
PMID:12218053 GO_REF:0000107 NCBI chr  X:10,964,035...11,082,403
Ensembl chr  X:10,963,809...11,082,565
JBrowse link
G Med16 mediator complex subunit 16 ISO
IEA
(PMID:12218053)
GO_REF:0000107
RGD
Ensembl
PMID:12218053 GO_REF:0000107 NCBI chr 7:12,619,739...12,632,241
Ensembl chr 7:12,542,713...12,632,298
JBrowse link
G Med17 mediator complex subunit 17 ISO (PMID:12218053) RGD PMID:12218053 NCBI chr 8:13,522,257...13,835,302
Ensembl chr 8:13,819,563...13,835,168
JBrowse link
G Med24 mediator complex subunit 24 ISO (PMID:12218053) RGD PMID:12218053 NCBI chr10:86,620,166...86,658,014
Ensembl chr10:86,620,160...86,645,529
JBrowse link
G Med30 mediator complex subunit 30 ISO
IEA
(PMID:12218053)
GO_REF:0000107
RGD
Ensembl
PMID:12218053 GO_REF:0000107 NCBI chr 7:92,234,584...92,260,019
Ensembl chr 7:92,234,597...92,256,100
JBrowse link
G Med4 mediator complex subunit 4 ISO
IEA
(PMID:12218053)
GO_REF:0000107
RGD
Ensembl
PMID:12218053 GO_REF:0000107 NCBI chr15:55,406,543...55,416,816
Ensembl chr15:55,406,543...55,416,815
JBrowse link
G Myc MYC proto-oncogene, bHLH transcription factor ISO (MGI:MGI:6377809|PMID:26691508) RGD PMID:26691508 MGI:MGI:6377809 NCBI chr 7:102,586,313...102,591,240
Ensembl chr 7:102,586,313...102,591,240
JBrowse link
G Nkx2-5 NK2 homeobox 5 ISO
IEA
(MGI:MGI:83559|PMID:8887666)
GO_REF:0000107
RGD
Ensembl
PMID:8887666 GO_REF:0000107, MGI:MGI:83559 NCBI chr10:16,635,989...16,638,758
Ensembl chr10:16,635,989...16,638,764
JBrowse link
G Paxip1 PAX interacting protein 1 ISO (PMID:17925232)
(MGI:MGI:4354659|PMID:19583951), (MGI:MGI:4821506|PMID:20671152)
RGD PMID:17925232, PMID:19583951, PMID:20671152 MGI:MGI:4354659, MGI:MGI:4821506 NCBI chr 4:3,956,931...4,008,326
Ensembl chr 4:3,959,640...4,008,326
JBrowse link
G Pou5f1 POU class 5 homeobox 1 ISO (MGI:MGI:6377809|PMID:26691508) RGD PMID:26691508 MGI:MGI:6377809 NCBI chr20:3,747,231...3,751,994
Ensembl chr20:3,747,221...3,751,994
JBrowse link
G Srf serum response factor ISO (PMID:8887666) RGD PMID:8887666 NCBI chr 9:16,737,637...16,747,226
Ensembl chr 9:16,737,642...16,747,225
JBrowse link
G Sub1 SUB1 regulator of transcription IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 2:62,019,902...62,034,704
Ensembl chr 2:62,022,567...62,034,628
JBrowse link
G Taf6 TATA-box binding protein associated factor 6 ISO (PMID:11583621), (PMID:18628956) RGD PMID:11583621, PMID:18628956 NCBI chr12:19,320,269...19,328,706
Ensembl chr12:19,320,271...19,328,637
JBrowse link
G Xpa XPA, DNA damage recognition and repair factor ISO MGI:MGI:1100494 (MGI:MGI:5314556|PMID:22323595) RGD PMID:22323595 MGI:MGI:5314556 NCBI chr 5:61,749,767...61,793,641
Ensembl chr 5:61,749,767...61,792,928
JBrowse link
regulation of DNA-templated transcription, initiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Rrn3 RRN3 homolog, RNA polymerase I transcription factor ISO (MGI:MGI:63283|PMID:8413268) RGD PMID:8413268 MGI:MGI:63283 NCBI chr10:3,170,387...3,214,648
Ensembl chr10:3,170,742...3,214,655
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 ISO (PMID:12665582) RGD PMID:12665582 NCBI chr 4:170,476,998...170,563,063
Ensembl chr 4:170,518,673...170,559,532
JBrowse link
RNA polymerase I preinitiation complex assembly term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Baz2a bromodomain adjacent to zinc finger domain, 2A IEA GO_REF:0000108 GOC GO_REF:0000108 NCBI chr 7:2,518,267...2,548,840
Ensembl chr 7:2,529,077...2,547,062
JBrowse link
G LOC103694876 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 IEA GO_REF:0000108 GOC GO_REF:0000108
G Pih1d1 PIH1 domain containing 1 IEA GO_REF:0000108 GOC GO_REF:0000108 NCBI chr 1:101,151,240...101,156,806
Ensembl chr 1:101,152,734...101,156,805
JBrowse link
G Polr1e RNA polymerase I subunit E ISO
IBA
(MGI:MGI:1928312|PMID:8641287)
PMID:21873635
RGD PMID:8641287, PMID:21873635 MGI:MGI:1928312, RGD:13792537 NCBI chr 5:60,572,573...60,588,097
Ensembl chr 5:60,572,577...60,588,240
JBrowse link
G Rrn3 RRN3 homolog, RNA polymerase I transcription factor IEA GO_REF:0000108 GOC GO_REF:0000108 NCBI chr10:3,170,387...3,214,648
Ensembl chr10:3,170,742...3,214,655
JBrowse link
G Smarca4 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 IEA GO_REF:0000108 GOC GO_REF:0000108 NCBI chr 8:22,648,323...22,739,468
Ensembl chr 8:22,648,323...22,739,468
JBrowse link
G Smarcb1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1 IEA GO_REF:0000108 GOC GO_REF:0000108 NCBI chr20:13,679,955...13,702,821
Ensembl chr20:13,680,716...13,704,931
JBrowse link
G Taf1b TATA-box binding protein associated factor, RNA polymerase I subunit B ISS
ISO
GO_REF:0000024
(PMID:21921199)
UniProt
RGD
PMID:21921199 GO_REF:0000024 NCBI chr 6:43,644,931...43,722,124
Ensembl chr 6:43,644,830...43,722,113
JBrowse link
G Taf1c TATA-box binding protein associated factor, RNA polymerase 1 subunit C IEA GO_REF:0000108 GOC GO_REF:0000108 NCBI chr19:52,246,061...52,252,642
Ensembl chr19:52,246,068...52,252,587
JBrowse link
G Ubtf upstream binding transcription factor IEA GO_REF:0000108 GOC GO_REF:0000108 NCBI chr10:90,250,275...90,265,772
Ensembl chr10:90,250,275...90,265,017
JBrowse link
RNA polymerase II preinitiation complex assembly term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Brf2 BRF2, RNA polymerase III transcription initiation factor subunit IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr16:69,089,955...69,094,678
Ensembl chr16:69,089,955...69,094,680
JBrowse link
G Dr1 down-regulator of transcription 1 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr14:2,463,651...2,475,004
Ensembl chr14:2,463,643...2,474,780
JBrowse link
G Gtf2a2 general transcription factor 2A subunit 2 ISO
IBA
(PMID:7958899), (PMID:8626665)
PMID:21873635
RGD PMID:7958899, PMID:8626665, PMID:21873635 RGD:13792537 NCBI chr 8:76,422,341...76,435,587
Ensembl chr 8:76,422,359...76,435,473
JBrowse link
G Gtf2b general transcription factor IIB IEA
IBA
ISO
ISS
GO_REF:0000107
PMID:21873635
(PMID:3029109), (PMID:8413225), (PMID:9841876)
GO_REF:0000024
Ensembl
RGD
UniProt
PMID:3029109, PMID:8413225, PMID:9841876, PMID:21873635 GO_REF:0000024, GO_REF:0000107, RGD:13792537 NCBI chr 2:248,709,433...248,727,741
Ensembl chr 2:248,715,281...248,727,741
JBrowse link
G Gtf2f2 general transcription factor IIF subunit 2 IDA RGD PMID:7929273 RGD:9681417 NCBI chr15:57,942,057...58,068,892
Ensembl chr15:57,942,059...58,068,892
JBrowse link
G LOC100910207 protein Dr1-like IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr14:1,621,021...1,632,432
Ensembl chr14:1,621,026...1,632,378
JBrowse link
G LOC103695118 transcription initiation factor IIA subunit 2 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 Ensembl chr 8:76,422,359...76,435,473 JBrowse link
G Taf11 TATA-box binding protein associated factor 11 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr20:7,476,648...7,484,417
Ensembl chr20:7,476,651...7,482,747
JBrowse link
G Taf12 TATA-box binding protein associated factor 12 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 5:150,459,701...150,476,521
Ensembl chr 5:150,459,713...150,475,186
JBrowse link
G Taf7 TATA-box binding protein associated factor 7 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr18:30,779,149...30,781,297
Ensembl chr18:30,779,150...30,781,292
JBrowse link
G Taf7l TATA-box binding protein associated factor 7-like IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr  X:105,292,338...105,308,554
Ensembl chr  X:105,292,338...105,308,554
JBrowse link
G Taf7l-ps1 TAF7-like RNA polymerase II, TATA box binding protein (TBP)-associated factor, pseudogene 1 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 7:59,138,768...59,139,910 JBrowse link
G Taf7l2 Taf7l2 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 Ensembl chr 7:59,138,768...59,139,910 JBrowse link
G Tbp TATA box binding protein ISO (PMID:9841876) RGD PMID:9841876 NCBI chr 1:57,491,381...57,509,335
Ensembl chr 1:57,491,643...57,508,449
JBrowse link
RNA polymerase III preinitiation complex assembly term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Bdp1 B double prime 1, subunit of RNA polymerase III transcription initiation factor IIIB IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 2:30,248,458...30,340,211
Ensembl chr 2:30,250,633...30,340,208
JBrowse link
G Brf1 BRF1, RNA polymerase III transcription initiation factor subunit IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 6:137,762,230...137,808,573
Ensembl chr 6:137,765,122...137,808,303
JBrowse link
transcription initiation from mitochondrial promoter term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Tfam transcription factor A, mitochondrial ISO
ISS
(PMID:20410300)
GO_REF:0000024
RGD
UniProt
PMID:20410300 GO_REF:0000024 NCBI chr20:18,594,057...18,606,106
Ensembl chr20:18,594,037...18,606,151
JBrowse link
G Tfb2m transcription factor B2, mitochondrial ISS
ISO
GO_REF:0000024
(PMID:20410300), (PMID:29149603)
UniProt
RGD
PMID:20410300, PMID:29149603 GO_REF:0000024 NCBI chr13:97,820,493...97,838,275
Ensembl chr13:97,820,493...97,838,228
JBrowse link
transcription initiation from RNA polymerase I promoter term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cavin1 caveolae associated protein 1 IEA
IBA
ISS
ISO
GO_REF:0000107
PMID:21873635
PMID:9582279
(MGI:MGI:3711373|PMID:11139612)
(PMID:9582279)
Ensembl
RGD
PMID:9582279, PMID:11139612, PMID:21873635, PMID:9582279 GO_REF:0000107, MGI:MGI:3711373, RGD:13792537, RGD:8554461 NCBI chr10:88,862,513...88,874,495
Ensembl chr10:88,860,733...88,874,528
JBrowse link
G Lipe lipase E, hormone sensitive type ISS PMID:9582279 UniProt PMID:9582279 RGD:8554461 NCBI chr 1:82,248,031...82,266,727
Ensembl chr 1:82,248,046...82,266,727
JBrowse link
G Rrn3 RRN3 homolog, RNA polymerase I transcription factor ISO
IBA
MGI:MGI:3584037 (MGI:MGI:3583493|PMID:15989966)
PMID:21873635
RGD PMID:15989966, PMID:21873635 MGI:MGI:3583493, RGD:13792537 NCBI chr10:3,170,387...3,214,648
Ensembl chr10:3,170,742...3,214,655
JBrowse link
G Taf1 TATA-box binding protein associated factor 1 ISO UniProtKB:P17480|UniProtKB:Q15572 (PMID:12498690) RGD PMID:12498690 NCBI chr  X:71,412,291...71,486,456
Ensembl chr  X:71,412,289...71,485,085
JBrowse link
G Ttf1 transcription termination factor 1 ISO (MGI:MGI:72087|PMID:7720715) RGD PMID:7720715 MGI:MGI:72087 NCBI chr 3:7,635,630...7,660,153
Ensembl chr 3:7,635,933...7,660,673
JBrowse link
G Ubtf upstream binding transcription factor ISO (PMID:12498690) RGD PMID:12498690 NCBI chr10:90,250,275...90,265,772
Ensembl chr10:90,250,275...90,265,017
JBrowse link
transcription initiation from RNA polymerase II promoter term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G AABR07063323.1 IEA GO_REF:0000002 InterPro GO_REF:0000002 Ensembl chr 6:28,557,633...28,557,848 JBrowse link
G Ccnh cyclin H ISO
IEA
(PMID:7533895)
GO_REF:0000107
RGD
Ensembl
PMID:7533895 GO_REF:0000107 NCBI chr 2:13,593,100...13,613,910
Ensembl chr 2:13,593,100...13,613,910
JBrowse link
G Cdk7 cyclin-dependent kinase 7 ISO
IEA
(PMID:7533895)
GO_REF:0000107
RGD
Ensembl
PMID:7533895 GO_REF:0000107 NCBI chr 2:30,710,642...30,735,522
Ensembl chr 2:30,710,643...30,735,514
JBrowse link
G Ercc3 ERCC excision repair 3, TFIIH core complex helicase subunit IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr18:25,037,668...25,068,380
Ensembl chr18:25,037,625...25,068,389
JBrowse link
G Gtf2a1 general transcription factor 2A subunit 1 IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 6:115,321,110...115,352,659
Ensembl chr 6:115,320,467...115,352,681
JBrowse link
G Gtf2a1l general transcription factor 2A subunit 1 like IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 6:12,412,198...12,468,613
Ensembl chr 6:12,415,805...12,468,596
JBrowse link
G Gtf2a2 general transcription factor 2A subunit 2 IEA
ISO
GO_REF:0000002
(PMID:7958899)
InterPro
RGD
PMID:7958899 GO_REF:0000002 NCBI chr 8:76,422,341...76,435,587
Ensembl chr 8:76,422,359...76,435,473
JBrowse link
G Gtf2b general transcription factor IIB ISS
ISO
GO_REF:0000024
(PMID:3029109)
UniProt
RGD
PMID:3029109 GO_REF:0000024 NCBI chr 2:248,709,433...248,727,741
Ensembl chr 2:248,715,281...248,727,741
JBrowse link
G Gtf2e2 general transcription factor IIE subunit 2 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr16:62,113,846...62,164,339
Ensembl chr16:62,113,854...62,164,135
JBrowse link
G Gtf2f1 general transcription factor IIF subunit 1 ISO
IBA
(PMID:7929273)
PMID:21873635
RGD PMID:7929273, PMID:21873635 RGD:13792537 NCBI chr 9:10,032,806...10,042,392
Ensembl chr 9:10,033,011...10,042,418
JBrowse link
G Gtf2f2 general transcription factor IIF subunit 2 IEA
IBA
IDA
GO_REF:0000104
PMID:21873635
PMID:7929273
UniProt PMID:21873635, PMID:7929273 GO_REF:0000104, RGD:13792537, RGD:9681417 NCBI chr15:57,942,057...58,068,892
Ensembl chr15:57,942,059...58,068,892
JBrowse link
G Gtf2h5 general transcription factor IIH subunit 5 IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 1:46,978,345...46,985,032
Ensembl chr 1:46,978,458...46,985,032
JBrowse link
G LOC103690054 DNA-directed RNA polymerase II subunit RPB9 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 1:91,041,173...91,042,258
Ensembl chr 1:91,041,214...91,042,230
Ensembl chr 1:91,041,214...91,042,230
JBrowse link
G LOC103695118 transcription initiation factor IIA subunit 2 IEA GO_REF:0000002 InterPro GO_REF:0000002 Ensembl chr 8:76,422,359...76,435,473 JBrowse link
G Maz MYC associated zinc finger protein ISO (PMID:1502157) RGD PMID:1502157 NCBI chr 1:198,456,699...198,460,126
Ensembl chr 1:198,456,699...198,460,126
JBrowse link
G Polr2d RNA polymerase II subunit D IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr18:24,570,762...24,577,894
Ensembl chr18:24,570,762...24,577,894
JBrowse link
G Polr2g RNA polymerase II subunit G IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 1:224,991,250...224,998,355
Ensembl chr 1:224,991,222...224,994,653
JBrowse link
G Polr2i RNA polymerase II subunit I IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 1:88,686,812...88,688,249
Ensembl chr 1:88,686,731...88,688,258
JBrowse link
G Taf1 TATA-box binding protein associated factor 1 ISO UniProtKB:Q60544 (PMID:17996705), (PMID:25412659) RGD PMID:17996705, PMID:25412659 NCBI chr  X:71,412,291...71,486,456
Ensembl chr  X:71,412,289...71,485,085
JBrowse link
G Taf10 TATA-box binding protein associated factor 10 ISO (PMID:9603525) RGD PMID:9603525 NCBI chr 1:170,585,160...170,586,428
Ensembl chr 1:170,585,167...170,586,603
JBrowse link
G Taf12 TATA-box binding protein associated factor 12 ISO (PMID:9603525) RGD PMID:9603525 NCBI chr 5:150,459,701...150,476,521
Ensembl chr 5:150,459,713...150,475,186
JBrowse link
G Taf2 TATA-box binding protein associated factor 2 IBA
ISO
PMID:21873635
(PMID:10409744), (PMID:9418870)
RGD PMID:9418870, PMID:10409744, PMID:21873635 RGD:13792537 NCBI chr 7:94,698,987...94,755,924
Ensembl chr 7:94,698,987...94,755,924
JBrowse link
G Taf4 TATA-box binding protein associated factor 4 ISO
IBA
(PMID:12771217), (PMID:9603525)
PMID:21873635
RGD PMID:9603525, PMID:12771217, PMID:21873635 RGD:13792537 NCBI chr 3:175,300,842...175,364,655
Ensembl chr 3:175,301,879...175,327,689
JBrowse link
G Taf4b TATA-box binding protein associated factor 4b IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr18:6,206,939...6,338,794
Ensembl chr18:6,207,280...6,318,219
JBrowse link
G Taf5 TATA-box binding protein associated factor 5 ISO
IBA
(PMID:9045704), (PMID:9603525)
PMID:21873635
RGD PMID:9045704, PMID:9603525, PMID:21873635 RGD:13792537 NCBI chr 1:266,844,480...266,859,965
Ensembl chr 1:266,844,480...266,859,965
JBrowse link
G Taf6 TATA-box binding protein associated factor 6 IEA
IBA
ISO
GO_REF:0000107
PMID:21873635
(PMID:15328371), (PMID:9603525)
Ensembl
RGD
PMID:9603525, PMID:15328371, PMID:21873635 GO_REF:0000107, RGD:13792537 NCBI chr12:19,320,269...19,328,706
Ensembl chr12:19,320,271...19,328,637
JBrowse link
G Taf6l TATA-box binding protein associated factor 6 like IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 1:224,974,238...224,986,819
Ensembl chr 1:224,974,208...224,986,291
JBrowse link
G Taf7 TATA-box binding protein associated factor 7 ISO (PMID:16407123), (PMID:9603525) RGD PMID:9603525, PMID:16407123 NCBI chr18:30,779,149...30,781,297
Ensembl chr18:30,779,150...30,781,292
JBrowse link
G Taf8 TATA-box binding protein associated factor 8 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 9:15,513,048...15,532,992
Ensembl chr 9:15,513,063...15,529,800
JBrowse link
transcription initiation from RNA polymerase III promoter term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Crcp CGRP receptor component IEA
IBA
GO_REF:0000002
PMID:21873635
InterPro PMID:21873635 GO_REF:0000002, RGD:13792537 NCBI chr12:30,125,237...30,160,857
Ensembl chr12:30,125,168...30,180,115
JBrowse link
G Gtf3c1 general transcription factor IIIC subunit 1 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 1:197,032,473...197,098,676
Ensembl chr 1:197,032,474...197,098,649
JBrowse link
G Gtf3c5 general transcription factor IIIC subunit 5 IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 3:7,144,354...7,164,678
Ensembl chr 3:7,144,250...7,164,654
JBrowse link
G Polr3h RNA polymerase III subunit H IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 7:123,146,248...123,156,558
Ensembl chr 7:123,146,249...123,156,558
JBrowse link
G Snapc5 small nuclear RNA activating complex, polypeptide 5 IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 8:69,127,708...69,131,539
Ensembl chr 8:69,127,708...69,131,539
JBrowse link
transcription open complex formation at RNA polymerase II promoter term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gtf2e1 general transcription factor IIE subunit 1 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr11:66,078,786...66,111,394
Ensembl chr11:66,078,820...66,110,848
JBrowse link
transcription preinitiation complex assembly term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gtf2b general transcription factor IIB IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 2:248,709,433...248,727,741
Ensembl chr 2:248,715,281...248,727,741
JBrowse link
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 Brf2 BRF2, RNA polymerase III transcription initiation factor subunit IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr16:69,089,955...69,094,678
Ensembl chr16:69,089,955...69,094,680
JBrowse link
G Gtf2b general transcription factor IIB ISS
IBA
ISO
IEA
GO_REF:0000024
PMID:21873635
(PMID:10318856)
GO_REF:0000107
UniProt
RGD
Ensembl
PMID:10318856, PMID:21873635 GO_REF:0000024, GO_REF:0000107, RGD:13792537 NCBI chr 2:248,709,433...248,727,741
Ensembl chr 2:248,715,281...248,727,741
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20014
    metabolic process 12256
      organic substance metabolic process 11636
        macromolecule metabolic process 10081
          gene expression 6295
            transcription, DNA-templated 3419
              DNA-templated transcription, initiation 124
                DNA-templated transcription open complex formation + 2
                DNA-templated transcriptional start site selection + 2
                negative regulation of DNA-templated transcription, initiation + 6
                positive regulation of DNA-templated transcription, initiation + 44
                regulation of DNA-templated transcription, initiation + 52
                transcription initiation from RNA polymerase I promoter + 14
                transcription initiation from RNA polymerase II promoter + 78
                transcription initiation from RNA polymerase III promoter + 7
                transcription initiation from bacterial-type RNA polymerase promoter + 0
                transcription initiation from mitochondrial promoter 2
                transcription preinitiation complex assembly + 41
Path 2
Term Annotations click to browse term
  biological_process 20014
    cellular process 18788
      cellular metabolic process 11065
        heterocycle metabolic process 5634
          nucleobase-containing compound metabolic process 5483
            nucleic acid metabolic process 4980
              RNA metabolic process 4470
                RNA biosynthetic process 3478
                  nucleic acid-templated transcription 3464
                    transcription, DNA-templated 3419
                      DNA-templated transcription, initiation 124
                        DNA-templated transcription open complex formation + 2
                        DNA-templated transcriptional start site selection + 2
                        negative regulation of DNA-templated transcription, initiation + 6
                        positive regulation of DNA-templated transcription, initiation + 44
                        regulation of DNA-templated transcription, initiation + 52
                        transcription initiation from RNA polymerase I promoter + 14
                        transcription initiation from RNA polymerase II promoter + 78
                        transcription initiation from RNA polymerase III promoter + 7
                        transcription initiation from bacterial-type RNA polymerase promoter + 0
                        transcription initiation from mitochondrial promoter 2
                        transcription preinitiation complex assembly + 41
paths to the root

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.