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ONTOLOGY REPORT - ANNOTATIONS

Term:rRNA transcription
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Accession:GO:0009303 term browser browse the term
Definition:The synthesis of ribosomal RNA (rRNA), any RNA that forms part of the ribosomal structure, from a DNA template.
Synonyms:broad_synonym: rRNA biosynthesis;   rRNA biosynthetic process;   rRNA synthesis


show annotations for term's descendants           Sort by:
rRNA transcription term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ang angiogenin involved_in ISO (PMID:15735021), (PMID:27518564), (PMID:29100074), (PMID:32510170)
(PMID:27518564), (PMID:33758201) 		RGD PMID:15735021 PMID:27518564 PMID:29100074 PMID:32510170 PMID:33758201 NCBI chr15:24,312,711...24,323,361 JBrowse link
G Cavin1 caveolae associated protein 1 involved_in ISS
IEA
ISO 		GO_REF:0000024
GO_REF:0000107
(PMID:27528195) 		UniProt
Ensembl
RGD		 PMID:27528195 GO_REF:0000024 GO_REF:0000107 NCBI chr10:85,884,100...85,896,136
Ensembl chr10:85,889,036...85,896,120 		JBrowse link
G Cdkn2a cyclin-dependent kinase inhibitor 2A acts_upstream_of_or_within ISO MGI:98834 (PMID:18809582) RGD PMID:18809582 NCBI chr 5:109,100,763...109,114,448
Ensembl chr 5:103,984,949...104,003,149 		JBrowse link
G LOC257642 rRNA promoter binding protein IDA RGD PMID:11713263 RGD:1299600
G Mars1 methionyl-tRNA synthetase 1 involved_in ISO (PMID:10791971) RGD PMID:10791971 NCBI chr 7:63,121,142...63,138,550
Ensembl chr 7:63,121,142...63,138,495 		JBrowse link
G Npm1 nucleophosmin 1 IMP RGD PMID:21444791 RGD:11535018 NCBI chr10:17,741,512...17,751,626
Ensembl chr10:17,739,941...17,751,645
Ensembl chr  X:17,739,941...17,751,645 		JBrowse link
G Npm3 nucleophosmin/nucleoplasmin, 3 acts_upstream_of_or_within ISO
IEA 		(PMID:15596447)
GO_REF:0000107 		RGD
Ensembl		 PMID:15596447 GO_REF:0000107 NCBI chr 1:244,595,638...244,597,623
Ensembl chr 1:244,595,644...244,597,591 		JBrowse link
G Polr1a RNA polymerase I subunit A IDA RGD PMID:9422795 RGD:2312782 NCBI chr 4:103,950,051...104,014,022
Ensembl chr 4:103,950,051...104,014,020 		JBrowse link
G Polr1b RNA polymerase I subunit B acts_upstream_of_or_within IDA
IEA
ISO 		GO_REF:0000107
MGI:3774130 (PMID:18023416) 		Ensembl
RGD		 PMID:18023416 PMID:9422795 GO_REF:0000107, RGD:2312782 NCBI chr 3:116,333,910...116,358,385
Ensembl chr 3:116,333,889...116,358,379 		JBrowse link
G Polr1g RNA polymerase I subunit G acts_upstream_of_or_within ISO (PMID:15226435) RGD PMID:15226435 NCBI chr 1:79,007,490...79,010,766
Ensembl chr 1:79,007,490...79,010,766 		JBrowse link
G Sirt7 sirtuin 7 involved_in ISO (PMID:19174463) RGD PMID:19174463 NCBI chr10:106,394,802...106,401,627
Ensembl chr10:105,896,476...105,903,172 		JBrowse link
G Spin1 spindlin 1 involved_in ISO
ISS 		(PMID:21960006)
GO_REF:0000024 		RGD
UniProt		 PMID:21960006 GO_REF:0000024 NCBI chr17:14,055,685...14,105,366
Ensembl chr17:14,055,689...14,105,411 		JBrowse link
G Top1 DNA topoisomerase I IMP RGD PMID:3033639 RGD:2317069 NCBI chr 3:149,293,469...149,376,618
Ensembl chr 3:149,293,403...149,376,623 		JBrowse link
G Tp53 tumor protein p53 acts_upstream_of_or_within ISO
IEA 		MGI:104738 (PMID:18809582)
GO_REF:0000107 		RGD
Ensembl		 PMID:18809582 GO_REF:0000107 NCBI chr10:54,798,871...54,810,300
Ensembl chr10:54,300,048...54,311,524 		JBrowse link
5S class rRNA transcription by RNA polymerase III term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gtf3c1 general transcription factor IIIC subunit 1 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 1:189,634,645...189,700,848
Ensembl chr 1:180,203,995...180,270,201 		JBrowse link
negative regulation of transcription of nucleolar large rRNA by RNA polymerase I term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dedd death effector domain-containing acts_upstream_of_or_within ISO
IEA 		(PMID:9774341)
GO_REF:0000107 		RGD
Ensembl		 PMID:9774341 GO_REF:0000107 NCBI chr13:83,755,874...83,769,982
Ensembl chr13:83,756,108...83,769,332 		JBrowse link
G Macroh2a1 macroH2A.1 histone involved_in ISO
IEA
IBA 		UniProtKB:Q9P0M6 (PMID:24071584)
GO_REF:0000107
GO_REF:0000033 		RGD
Ensembl
GO_Central		 PMID:24071584 GO_REF:0000033 GO_REF:0000107 NCBI chr17:8,479,331...8,542,071
Ensembl chr17:8,479,372...8,542,072 		JBrowse link
G Macroh2a2 macroH2A.2 histone involved_in ISO
IEA
IBA 		UniProtKB:P0C0S8 (PMID:24071584)
GO_REF:0000107
GO_REF:0000033 		RGD
Ensembl
GO_Central		 PMID:24071584 GO_REF:0000033 GO_REF:0000107 NCBI chr20:29,678,194...29,727,867
Ensembl chr20:29,678,222...29,727,891 		JBrowse link
G Nop53 NOP53 ribosome biogenesis factor involved_in ISO
IEA 		(PMID:27729611)
GO_REF:0000107 		RGD
Ensembl		 PMID:27729611 GO_REF:0000107 NCBI chr 1:76,629,084...76,636,902
Ensembl chr 1:76,629,069...76,636,902 		JBrowse link
nucleolar large rRNA transcription by RNA polymerase I term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Polr1e RNA polymerase I subunit E involved_in ISO
IEA 		(PMID:24207024)
GO_REF:0000107 		RGD
Ensembl		 PMID:24207024 GO_REF:0000107 NCBI chr 5:59,279,456...59,295,346
Ensembl chr 5:59,279,460...59,295,369 		JBrowse link
G Taf1b TATA-box binding protein associated factor, RNA polymerase I subunit B involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 6:41,116,980...41,194,593
Ensembl chr 6:41,117,420...41,194,593 		JBrowse link
G Tcof1 treacle ribosome biogenesis factor 1 involved_in
acts_upstream_of_or_within 		IBA
ISO 		GO_REF:0000033
MGI:2386185 (PMID:15249688) 		GO_Central
RGD		 PMID:15249688 GO_REF:0000033 NCBI chr18:54,267,015...54,300,324
Ensembl chr18:54,267,026...54,300,324 		JBrowse link
positive regulation of transcription of nucleolar large rRNA by RNA polymerase I term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ddx11 DEAD/H-box helicase 11 involved_in ISO (PMID:26089203) RGD PMID:26089203 NCBI chr 9:105,833,234...105,862,844
Ensembl chr 9:105,833,504...105,862,550 		JBrowse link
G Ippk inositol-pentakisphosphate 2-kinase involved_in ISO (PMID:23203802) RGD PMID:23203802 NCBI chr17:15,190,191...15,235,203
Ensembl chr17:15,190,265...15,229,541 		JBrowse link
G Mars1 methionyl-tRNA synthetase 1 involved_in ISO (PMID:10791971) RGD PMID:10791971 NCBI chr 7:63,121,142...63,138,550
Ensembl chr 7:63,121,142...63,138,495 		JBrowse link
G Mtor mechanistic target of rapamycin kinase involved_in ISO
IEA 		(PMID:24036451)
GO_REF:0000107 		RGD
Ensembl		 PMID:24036451 GO_REF:0000107 NCBI chr 5:158,884,856...158,994,311
Ensembl chr 5:158,884,804...158,994,311 		JBrowse link
G Ncl nucleolin involved_in ISO (PMID:24071584) RGD PMID:24071584 NCBI chr 9:86,999,588...87,008,112
Ensembl chr 9:86,998,019...87,008,136 		JBrowse link
G Nol11 nucleolar protein 11 involved_in ISO
IEA 		(PMID:22916032)
GO_REF:0000107 		RGD
Ensembl		 PMID:22916032 GO_REF:0000107 NCBI chr10:92,119,000...92,141,688
Ensembl chr10:92,121,833...92,141,677 		JBrowse link
G Pih1d1 PIH1 domain containing 1 involved_in ISO
IEA 		UniProtKB:P42345|UniProtKB:Q12824 (PMID:22368283), (PMID:24036451)
GO_REF:0000107 		RGD
Ensembl		 PMID:22368283 PMID:24036451 GO_REF:0000107 NCBI chr 1:95,639,597...95,645,295
Ensembl chr 1:95,639,592...95,645,290 		JBrowse link
G Pwp1 PWP1 homolog, endonuclein involved_in ISO (PMID:29065309) RGD PMID:29065309 NCBI chr 7:17,982,730...17,998,728
Ensembl chr 7:17,982,235...17,998,731 		JBrowse link
G Smarca4 SWI/SNF related BAF chromatin remodeling complex subunit ATPase 4 involved_in ISO
IEA 		(PMID:22368283)
GO_REF:0000107 		RGD
Ensembl		 PMID:22368283 GO_REF:0000107 NCBI chr 8:28,438,370...28,535,071
Ensembl chr 8:20,167,717...20,258,975 		JBrowse link
G Smarcb1 SWI/SNF related BAF chromatin remodeling complex subunit B1 involved_in ISO UniProtKB:Q9NWS0 (PMID:22368283) RGD PMID:22368283 NCBI chr20:12,741,164...12,763,616
Ensembl chr20:12,741,477...12,763,620 		JBrowse link
regulation of transcription of nucleolar large rRNA by RNA polymerase I term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Sirt7 sirtuin 7 involved_in ISO
ISS 		(PMID:24207024)
GO_REF:0000024 		RGD
UniProt		 PMID:24207024 GO_REF:0000024 NCBI chr10:106,394,802...106,401,627
Ensembl chr10:105,896,476...105,903,172 		JBrowse link
transcription elongation by RNA polymerase I term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ercc2 ERCC excision repair 2, TFIIH core complex helicase subunit acts_upstream_of_or_within ISO
IEA 		MGI:2183949 (PMID:23562818)
GO_REF:0000107 		RGD
Ensembl		 PMID:23562818 GO_REF:0000107 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 acts_upstream_of_or_within ISO (PMID:23562818) RGD PMID:23562818 NCBI chr18:23,883,613...23,914,326
Ensembl chr18:23,883,580...23,914,329 		JBrowse link
G Ercc6 ERCC excision repair 6, chromatin remodeling factor acts_upstream_of_or_within ISO
IEA 		MGI:1932102 (PMID:23562818)
GO_REF:0000107 		RGD
Ensembl		 PMID:23562818 GO_REF:0000107 NCBI chr16:7,764,983...7,835,587
Ensembl chr16:7,765,013...7,835,587 		JBrowse link
G Gtf2h5 general transcription factor IIH subunit 5 acts_upstream_of_or_within ISO MGI:5514340 (PMID:23562818) RGD PMID:23562818 NCBI chr 1:46,656,804...46,663,512
Ensembl chr 1:46,656,859...46,664,939 		JBrowse link
G Polr1e RNA polymerase I subunit E involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 5:59,279,456...59,295,346
Ensembl chr 5:59,279,460...59,295,369 		JBrowse link
G Polr1f RNA polymerase I subunit F involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 6:50,053,289...50,070,514
Ensembl chr 6:50,053,289...50,070,514 		JBrowse link
G Polr2e RNA polymerase II, I and III subunit E involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 7:9,666,695...9,670,638
Ensembl chr 7:9,666,716...9,670,643 		JBrowse link
G Ubtf upstream binding transcription factor acts_upstream_of_or_within ISO (PMID:23562818) RGD PMID:23562818 NCBI chr10:87,258,217...87,274,291
Ensembl chr10:87,258,217...87,272,969 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20543
    cellular process 19534
      metabolic process 12158
        macromolecule metabolic process 9981
          macromolecule biosynthetic process 7628
            gene expression 7191
              DNA-templated transcription 3579
                rRNA transcription 38
                  5S class rRNA transcription by RNA polymerase III 1
                  nucleolar large rRNA transcription by RNA polymerase I + 25
                  plastid rRNA transcription 0
Path 2
Term Annotations click to browse term
  biological_process 20543
    cellular process 19534
      metabolic process 12158
        primary metabolic process 10727
          nucleobase-containing compound metabolic process 5900
            nucleobase-containing compound biosynthetic process 4809
              nucleic acid biosynthetic process 4524
                RNA biosynthetic process 4407
                  DNA-templated transcription 3579
                    rRNA transcription 38
                      5S class rRNA transcription by RNA polymerase III 1
                      nucleolar large rRNA transcription by RNA polymerase I + 25
                      plastid rRNA transcription 0
paths to the root