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ONTOLOGY REPORT - ANNOTATIONS

Term:rRNA modification
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Accession:GO:0000154 term browser browse the term
Definition:The covalent alteration of one or more nucleotides within an rRNA molecule to produce an rRNA molecule with a sequence that differs from that coded genetically.
Comment:The term 'RNA editing' (GO:0016547) was merged into 'RNA modification' (GO:0009451) on the basis of statements in the preface of Modification and Editing of RNA (ISBN:1555811337) that there is no clear distinction between modification and editing. Parallel changes were made for substrate (e.g. tRNA, rRNA, etc.) specific child terms of 'RNA editing'.
Synonyms:narrow_synonym: rRNA editing
 alt_id: GO:0016548

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rRNA modification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DIMT1 DIM1 rRNA methyltransferase and ribosome maturation factor involved_in IEA InterPro GO_REF:0000002 NCBI chr 4:58,568,080...58,583,582
Ensembl chr 4:58,568,567...58,583,812 		JBrowse link
G METTL25B methyltransferase like 25B involved_in IEA InterPro GO_REF:0000002 NCBI chr20:7,127,876...7,136,051
Ensembl chr20:7,123,538...7,135,961 		JBrowse link
G MRM1 mitochondrial rRNA methyltransferase 1 involved_in IEA TreeGrafter GO_REF:0000118 Ensembl chr16:31,181,477...31,188,090 JBrowse link
G NAT10 N-acetyltransferase 10 involved_in IEA UniProt GO_REF:0000104 NCBI chr 1:31,126,387...31,171,751
Ensembl chr 1:31,126,262...31,170,833 		JBrowse link
G TFB1M transcription factor B1, mitochondrial involved_in IEA InterPro GO_REF:0000002 NCBI chr13:82,823,528...82,877,958
Ensembl chr13:82,823,640...82,877,923 		JBrowse link
G TFB2M transcription factor B2, mitochondrial involved_in IEA InterPro GO_REF:0000002 NCBI chr25:83,564,405...83,591,980
Ensembl chr25:83,564,432...83,591,930 		JBrowse link
enzyme-directed rRNA pseudouridine synthesis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DKC1 dyskerin pseudouridine synthase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:129,015,883...129,029,741
Ensembl chr  X:129,016,046...129,030,001 		JBrowse link
G RPUSD1 RNA pseudouridine synthase domain containing 1 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr 5:704,649...708,025
Ensembl chr 5:704,519...708,058 		JBrowse link
G RPUSD2 RNA pseudouridine synthase domain containing 2 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr26:42,430,914...42,436,137
Ensembl chr26:42,429,263...42,436,090 		JBrowse link
G RPUSD3 RNA pseudouridine synthase D3 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr22:45,848,749...45,857,122
Ensembl chr22:45,848,788...45,857,117 		JBrowse link
G RPUSD4 RNA pseudouridine synthase D4 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr 1:117,313,209...117,338,728
Ensembl chr 1:117,330,040...117,338,682 		JBrowse link
G TSR3 TSR3 ribosome maturation factor involved_in IEA UniProt
Ensembl		 GO_REF:0000104 GO_REF:0000107 NCBI chr 5:1,237,625...1,240,287
Ensembl chr 5:1,237,821...1,240,191 		JBrowse link
rRNA (guanine-N7)-methylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G BUD23 BUD23 rRNA methyltransferase and ribosome maturation factor involved_in IEA Ensembl
InterPro
TreeGrafter		 GO_REF:0000002 GO_REF:0000107 GO_REF:0000118 NCBI chr28:9,368,950...9,382,951
Ensembl chr28:9,368,726...9,382,925 		JBrowse link
G LOC103236366 multifunctional methyltransferase subunit TRM112-like protein involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr 7:97,541,431...97,542,021 JBrowse link
G LOC103245638 multifunctional methyltransferase subunit TRM112-like protein involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr26:32,923,132...32,923,770 JBrowse link
G LOC103246566 multifunctional methyltransferase subunit TRM112-like protein involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr28:1,484,388...1,485,007 JBrowse link
G TRMT112 tRNA methyltransferase activator subunit 11-2 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr 1:9,916,884...9,918,790 JBrowse link
rRNA 2'-O-methylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G MRM1 mitochondrial rRNA methyltransferase 1 involved_in IEA GOC GO_REF:0000108 Ensembl chr16:31,181,477...31,188,090 JBrowse link
G MRM3 mitochondrial rRNA methyltransferase 3 involved_in IEA GOC GO_REF:0000108 Ensembl chr16:526,047...534,638 JBrowse link
rRNA acetylation involved in maturation of SSU-rRNA term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G NAT10 N-acetyltransferase 10 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr 1:31,126,387...31,171,751
Ensembl chr 1:31,126,262...31,170,833 		JBrowse link
rRNA base methylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G EMG1 EMG1 N1-specific pseudouridine methyltransferase involved_in IEA InterPro
TreeGrafter		 GO_REF:0000002 GO_REF:0000118 NCBI chr11:7,004,507...7,009,702
Ensembl chr11:7,004,645...7,009,527 		JBrowse link
G FDXACB1 ferredoxin-fold anticodon binding domain containing 1 involved_in IEA InterPro
TreeGrafter		 GO_REF:0000002 GO_REF:0000118 NCBI chr 1:103,224,186...103,229,456
Ensembl chr 1:103,225,050...103,229,138 		JBrowse link
G METTL15 methyltransferase 15, mitochondrial 12S rRNA N4-cytidine involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr 1:36,757,855...37,003,171
Ensembl chr 1:36,782,711...37,001,349 		JBrowse link
G METTL16 methyltransferase 16, RNA N6-adenosine involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr16:2,050,362...2,127,001
Ensembl chr16:2,050,955...2,124,824 		JBrowse link
G NOP2 NOP2 nucleolar protein involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr11:6,590,518...6,601,981
Ensembl chr11:6,590,642...6,601,552 		JBrowse link
G NSUN5 NOP2/Sun RNA methyltransferase 5 involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chr28:9,737,722...9,743,372
Ensembl chr28:9,737,777...9,743,189 		JBrowse link
rRNA methylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DIMT1 DIM1 rRNA methyltransferase and ribosome maturation factor involved_in IEA UniProt
TreeGrafter		 GO_REF:0000104 GO_REF:0000118 NCBI chr 4:58,568,080...58,583,582
Ensembl chr 4:58,568,567...58,583,812 		JBrowse link
G FBL fibrillarin involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chr 6:34,370,558...34,382,909
Ensembl chr 6:34,370,558...34,376,836 		JBrowse link
G FBLL1 fibrillarin like 1 involved_in IEA TreeGrafter GO_REF:0000118 Ensembl chr23:70,757,568...70,758,760 JBrowse link
G FTSJ3 FtsJ RNA 2'-O-methyltransferase 3 involved_in IEA InterPro
TreeGrafter
UniProt		 GO_REF:0000002 GO_REF:0000104 GO_REF:0000118 NCBI chr16:57,462,623...57,469,972
Ensembl chr16:57,462,798...57,469,604 		JBrowse link
G METTL25B methyltransferase like 25B involved_in IEA GOC GO_REF:0000108 NCBI chr20:7,127,876...7,136,051
Ensembl chr20:7,123,538...7,135,961 		JBrowse link
G METTL5 methyltransferase 5, N6-adenosine involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr10:55,339,009...55,352,353
Ensembl chr10:55,337,029...55,351,857 		JBrowse link
G MRM1 mitochondrial rRNA methyltransferase 1 involved_in IEA InterPro GO_REF:0000002 Ensembl chr16:31,181,477...31,188,090 JBrowse link
G MRM2 mitochondrial rRNA methyltransferase 2 involved_in IEA GOC GO_REF:0000108 NCBI chr28:19,336,935...19,355,221 JBrowse link
G NSUN3 NOP2/Sun RNA methyltransferase 3 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr22:86,576,985...86,643,030
Ensembl chr22:86,577,280...86,642,653 		JBrowse link
G NSUN4 NOP2/Sun RNA methyltransferase 4 involved_in IEA Ensembl GO_REF:0000107 NCBI chr20:86,432,047...86,453,481
Ensembl chr20:86,432,414...86,453,157 		JBrowse link
G RRP8 ribosomal RNA processing 8 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr 1:58,221,861...58,225,470
Ensembl chr 1:58,221,869...58,225,329 		JBrowse link
G TFB1M transcription factor B1, mitochondrial involved_in IEA UniProt
TreeGrafter		 GO_REF:0000104 GO_REF:0000118 NCBI chr13:82,823,528...82,877,958
Ensembl chr13:82,823,640...82,877,923 		JBrowse link
G TFB2M transcription factor B2, mitochondrial involved_in IEA UniProt
TreeGrafter		 GO_REF:0000104 GO_REF:0000118 NCBI chr25:83,564,405...83,591,980
Ensembl chr25:83,564,432...83,591,930 		JBrowse link
G TRMT112 tRNA methyltransferase activator subunit 11-2 involved_in ISO (PMID:31328227), (PMID:35033535) UniProt PMID:31328227 PMID:35033535 NCBI chr 1:9,916,884...9,918,790 JBrowse link
G ZCCHC4 zinc finger CCHC-type containing 4 involved_in IEA Ensembl
TreeGrafter
InterPro		 GO_REF:0000002 GO_REF:0000107 GO_REF:0000118 NCBI chr27:24,995,595...25,052,168
Ensembl chr27:24,995,053...25,019,951 		JBrowse link
rRNA pseudouridine synthesis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DKC1 dyskerin pseudouridine synthase 1 involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:15240872)
(PMID:23726835)		 Ensembl
MGI
TreeGrafter		 PMID:15240872 PMID:23726835 GO_REF:0000107 GO_REF:0000118 NCBI chr  X:129,015,883...129,029,741
Ensembl chr  X:129,016,046...129,030,001 		JBrowse link
G NHP2 NHP2 ribonucleoprotein involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr23:79,842,690...79,847,138
Ensembl chr23:79,842,948...79,846,984 		JBrowse link
G NOP10 NOP10 ribonucleoprotein involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr26:48,563,535...48,566,409
Ensembl chr26:48,563,517...48,566,745 		JBrowse link
snoRNA guided rRNA pseudouridine synthesis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DKC1 dyskerin pseudouridine synthase 1 ISO RGD PMID:12446766 RGD:633420 NCBI chr  X:129,015,883...129,029,741
Ensembl chr  X:129,016,046...129,030,001 		JBrowse link
G GAR1 GAR1 ribonucleoprotein involved_in ISO
IEA		 RGD
TreeGrafter		 PMID:12446766 GO_REF:0000118 RGD:633420 NCBI chr 7:57,713,245...57,722,831
Ensembl chr 7:57,713,881...57,722,224 		JBrowse link
G NHP2 NHP2 ribonucleoprotein ISO RGD PMID:12446766 RGD:633420 NCBI chr23:79,842,690...79,847,138
Ensembl chr23:79,842,948...79,846,984 		JBrowse link
G NOP10 NOP10 ribonucleoprotein ISO RGD PMID:12446766 RGD:633420 NCBI chr26:48,563,535...48,566,409
Ensembl chr26:48,563,517...48,566,745 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 16925
    metabolic process 10515
      primary metabolic process 9206
        RNA processing 894
          rRNA processing 225
            rRNA modification 36
              cotranscriptional mitochondrial rRNA nucleotide insertion 0
              rRNA acetylation + 1
              rRNA methylation + 26
              rRNA pseudouridine synthesis + 9
Path 2
Term Annotations click to browse term
  biological_process 16925
    cellular process 15870
      cellular metabolic process 8755
        cellular biosynthetic process 7063
          macromolecule biosynthetic process 6536
            nucleic acid biosynthetic process 4069
              RNA biosynthetic process 3964
                RNA processing 894
                  rRNA processing 225
                    rRNA modification 36
                      cotranscriptional mitochondrial rRNA nucleotide insertion 0
                      rRNA acetylation + 1
                      rRNA methylation + 26
                      rRNA pseudouridine synthesis + 9
paths to the root