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ONTOLOGY REPORT - ANNOTATIONS

Term:nucleobase metabolic process
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Accession:GO:0009112 term browser browse the term
Definition:The chemical reactions and pathways involving a nucleobase, a nitrogenous base that is a constituent of a nucleic acid, e.g. the purines: adenine, guanine, hypoxanthine, xanthine and the pyrimidines: cytosine, uracil, thymine.
Synonyms:exact_synonym: nucleobase metabolism


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'de novo' pyrimidine nucleobase biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CAD carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase involved_in ISO
IBA
IEA		 RGD
GO_Central
Ensembl
InterPro		 PMID:1476792 GO_REF:0000002 GO_REF:0000033 GO_REF:0000107 RGD:5132591 NCBI chr 3:111,887,017...111,914,511
Ensembl chr 3:111,887,020...111,914,492 		JBrowse link
G CMPK1 cytidine/uridine monophosphate kinase 1 involved_in IEA InterPro GO_REF:0000002 NCBI chr 6:164,161,439...164,197,429
Ensembl chr 6:164,162,518...164,197,379 		JBrowse link
G CPS1 carbamoyl-phosphate synthase 1 involved_in IEA InterPro GO_REF:0000002 NCBI chr15:113,210,038...113,339,086
Ensembl chr15:113,150,157...113,339,078 		JBrowse link
G DHODH dihydroorotate dehydrogenase (quinone) involved_in ISO
IBA
IEA		 RGD
GO_Central
InterPro		 PMID:1476792 GO_REF:0000002 GO_REF:0000033 RGD:5132591 NCBI chr 6:14,942,898...14,956,000
Ensembl chr 6:14,942,933...14,955,997 		JBrowse link
G MTOR mechanistic target of rapamycin kinase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 6:71,286,989...71,412,913
Ensembl chr 6:71,286,989...71,412,888 		JBrowse link
G UMPS uridine monophosphate synthetase involved_in IEA InterPro GO_REF:0000002 NCBI chr13:135,611,857...135,650,656
Ensembl chr13:135,610,058...135,650,603 		JBrowse link
adenine biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G GART phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase involved_in IBA GO_Central GO_REF:0000033 NCBI chr13:197,130,898...197,158,797
Ensembl chr13:197,130,904...197,161,891 		JBrowse link
adenine metabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G APRT adenine phosphoribosyltransferase acts_upstream_of_or_within IEA Ensembl GO_REF:0000107 NCBI chr 6:890,272...893,278
Ensembl chr 6:890,831...893,276 		JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 acts_upstream_of_or_within IEA Ensembl GO_REF:0000107 NCBI chr  X:110,321,144...110,357,902
Ensembl chr  X:110,321,204...110,357,894 		JBrowse link
adenine salvage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G APRT adenine phosphoribosyltransferase involved_in IEA
IBA		 InterPro
GO_Central		 GO_REF:0000002 GO_REF:0000033 NCBI chr 6:890,272...893,278
Ensembl chr 6:890,831...893,276 		JBrowse link
cytosine metabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G MAPK1 mitogen-activated protein kinase 1 acts_upstream_of_or_within ISO (PMID:15284227) MGI PMID:15284227 NCBI chr14:50,083,079...50,165,528
Ensembl chr14:50,082,896...50,165,513 		JBrowse link
G TET2 tet methylcytosine dioxygenase 2 acts_upstream_of_or_within ISO (PMID:21803851) MGI PMID:21803851 NCBI chr 8:116,413,253...116,546,976
Ensembl chr 8:116,415,267...116,545,299 		JBrowse link
GMP catabolic process to guanine term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G NT5C2 5'-nucleotidase, cytosolic II involved_in IEA Ensembl GO_REF:0000107 NCBI chr14:114,062,451...114,167,460
Ensembl chr14:114,062,459...114,145,109 		JBrowse link
guanine catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G GDA guanine deaminase involved_in IEA InterPro
UniProt
Ensembl		 GO_REF:0000002 GO_REF:0000041 GO_REF:0000104 GO_REF:0000107 NCBI chr 1:225,425,389...225,589,835
Ensembl chr 1:225,403,138...225,589,827 		JBrowse link
G UOX urate oxidase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 6:129,343,632...129,374,833
Ensembl chr 6:129,343,592...129,375,724 		JBrowse link
G URAD ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in IEA Ensembl GO_REF:0000107 NCBI chr11:5,353,524...5,363,481 JBrowse link
G XDH xanthine dehydrogenase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 3:107,987,060...108,052,043
Ensembl chr 3:107,987,126...108,053,169 		JBrowse link
guanine metabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G GDA guanine deaminase involved_in IBA GO_Central GO_REF:0000033 NCBI chr 1:225,425,389...225,589,835
Ensembl chr 1:225,403,138...225,589,827 		JBrowse link
G KDM1A lysine demethylase 1A ISO RGD PMID:20418916 RGD:9588315 NCBI chr 6:80,903,407...80,971,875
Ensembl chr 6:80,903,424...80,971,873 		JBrowse link
guanine salvage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in ISS
IBA
IEA		 UniProt
GO_Central
Ensembl		 GO_REF:0000024 GO_REF:0000033 GO_REF:0000107 NCBI chr  X:110,321,144...110,357,902
Ensembl chr  X:110,321,204...110,357,894 		JBrowse link
G PRTFDC1 phosphoribosyl transferase domain containing 1 NOT|involved_in ISO (PMID:21054786) UniProt PMID:21054786 NCBI chr10:50,365,654...50,458,487
Ensembl chr10:50,365,587...50,461,324 		JBrowse link
hypoxanthine biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ADA adenosine deaminase acts_upstream_of_or_within IEA Ensembl GO_REF:0000107 NCBI chr17:47,044,492...47,072,232
Ensembl chr17:47,044,497...47,072,245 		JBrowse link
G PRPS1 phosphoribosyl pyrophosphate synthetase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:88,074,861...88,101,925
Ensembl chr  X:88,074,965...88,101,910 		JBrowse link
G PRPS1L1 phosphoribosyl pyrophosphate synthetase 1 like 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr 9:87,161,863...87,164,314
Ensembl chr 9:87,163,252...87,164,208 		JBrowse link
hypoxanthine catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G UOX urate oxidase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 6:129,343,632...129,374,833
Ensembl chr 6:129,343,592...129,375,724 		JBrowse link
G URAD ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in IEA Ensembl GO_REF:0000107 NCBI chr11:5,353,524...5,363,481 JBrowse link
G XDH xanthine dehydrogenase involved_in ISO
IEA		 RGD
Ensembl		 PMID:232638 GO_REF:0000107 RGD:13210503 NCBI chr 3:107,987,060...108,052,043
Ensembl chr 3:107,987,126...108,053,169 		JBrowse link
hypoxanthine metabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in
acts_upstream_of_or_within		 ISO
IEA
IBA
ISS		 RGD
Ensembl
GO_Central
UniProt		 PMID:6206848 GO_REF:0000024 GO_REF:0000033 GO_REF:0000107 RGD:1580844 NCBI chr  X:110,321,144...110,357,902
Ensembl chr  X:110,321,204...110,357,894 		JBrowse link
hypoxanthine salvage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ADA adenosine deaminase involved_in IBA GO_Central GO_REF:0000033 NCBI chr17:47,044,492...47,072,232
Ensembl chr17:47,044,497...47,072,245 		JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in IEA
ISS		 Ensembl
UniProt		 GO_REF:0000024 GO_REF:0000107 NCBI chr  X:110,321,144...110,357,902
Ensembl chr  X:110,321,204...110,357,894 		JBrowse link
purine nucleobase biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G GART phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase involved_in IEA UniProt
InterPro		 GO_REF:0000002 GO_REF:0000104 NCBI chr13:197,130,898...197,158,797
Ensembl chr13:197,130,904...197,161,891 		JBrowse link
G PAICS phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 8:55,700,700...55,722,982
Ensembl chr 8:55,700,956...55,722,979 		JBrowse link
G PPAT phosphoribosyl pyrophosphate amidotransferase involved_in IEA InterPro GO_REF:0000002 NCBI chr 8:55,652,194...55,701,077
Ensembl chr 8:55,654,377...55,701,077 		JBrowse link
G SHMT1 serine hydroxymethyltransferase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr12:60,414,421...60,435,451
Ensembl chr12:60,416,463...60,435,450 		JBrowse link
purine nucleobase catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DPYD dihydropyrimidine dehydrogenase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 4:119,931,471...120,712,461
Ensembl chr 4:119,931,414...120,712,459 		JBrowse link
G UOX urate oxidase involved_in IBA GO_Central GO_REF:0000033 NCBI chr 6:129,343,632...129,374,833
Ensembl chr 6:129,343,592...129,375,724 		JBrowse link
purine nucleobase metabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ACP3 acid phosphatase 3 involved_in ISO (PMID:18940592) UniProt PMID:18940592 NCBI chr13:73,471,837...73,530,778
Ensembl chr13:73,471,889...73,530,011 		JBrowse link
G ADK adenosine kinase involved_in IBA GO_Central GO_REF:0000033 NCBI chr14:76,836,072...77,320,586
Ensembl chr14:76,836,095...77,322,416 		JBrowse link
G GMPR guanosine monophosphate reductase involved_in IEA UniProt GO_REF:0000043 NCBI chr 7:12,254,393...12,298,802
Ensembl chr 7:12,254,388...12,299,531 		JBrowse link
G GMPR2 guanosine monophosphate reductase 2 involved_in IEA UniProt GO_REF:0000043 NCBI chr 7:75,060,680...75,070,079
Ensembl chr 7:75,060,676...75,070,084 		JBrowse link
G PRPS1 phosphoribosyl pyrophosphate synthetase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:88,074,861...88,101,925
Ensembl chr  X:88,074,965...88,101,910 		JBrowse link
G PRPS1L1 phosphoribosyl pyrophosphate synthetase 1 like 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr 9:87,161,863...87,164,314
Ensembl chr 9:87,163,252...87,164,208 		JBrowse link
G TTR transthyretin involved_in IBA GO_Central GO_REF:0000033 NCBI chr 6:115,496,338...115,503,974
Ensembl chr 6:115,496,326...115,503,977 		JBrowse link
G UOX urate oxidase involved_in IEA UniProt
InterPro		 GO_REF:0000002 GO_REF:0000043 NCBI chr 6:129,343,632...129,374,833
Ensembl chr 6:129,343,592...129,375,724 		JBrowse link
G URAD ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in IEA UniProt GO_REF:0000043 NCBI chr11:5,353,524...5,363,481 JBrowse link
pyrimidine nucleobase biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CTPS1 CTP synthase 1 involved_in IBA GO_Central GO_REF:0000033 NCBI chr 6:170,201,749...170,233,105
Ensembl chr 6:170,201,751...170,233,016 		JBrowse link
G CTPS2 CTP synthase 2 involved_in IBA GO_Central GO_REF:0000033 NCBI chr  X:13,050,740...13,181,131
Ensembl chr  X:13,049,941...13,174,568 		JBrowse link
G UMPS uridine monophosphate synthetase involved_in IBA GO_Central GO_REF:0000033 NCBI chr13:135,611,857...135,650,656
Ensembl chr13:135,610,058...135,650,603 		JBrowse link
pyrimidine nucleobase catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CRMP1 collapsin response mediator protein 1 NOT|involved_in IBA GO_Central GO_REF:0000033 NCBI chr 8:4,734,175...4,805,647
Ensembl chr 8:4,734,200...4,805,644 		JBrowse link
G DPYD dihydropyrimidine dehydrogenase acts_upstream_of_or_within
involved_in		 ISO
IEA		 RGD
Ensembl		 PMID:1629785 GO_REF:0000107 RGD:1599794 NCBI chr 4:119,931,471...120,712,461
Ensembl chr 4:119,931,414...120,712,459 		JBrowse link
G DPYS dihydropyrimidinase involved_in IEA
IBA		 Ensembl
GO_Central		 GO_REF:0000033 GO_REF:0000107 NCBI chr 4:32,791,152...32,879,489
Ensembl chr 4:32,789,460...32,879,489 		JBrowse link
G DPYSL2 dihydropyrimidinase like 2 NOT|involved_in IBA GO_Central GO_REF:0000033 NCBI chr14:10,428,598...10,545,705
Ensembl chr14:10,427,957...10,545,704 		JBrowse link
G DPYSL3 dihydropyrimidinase like 3 NOT|involved_in IBA GO_Central GO_REF:0000033 NCBI chr 2:148,663,563...148,777,055
Ensembl chr 2:148,662,051...148,776,619 		JBrowse link
G DPYSL4 dihydropyrimidinase like 4 NOT|involved_in IBA GO_Central GO_REF:0000033 NCBI chr14:140,497,457...140,511,740
Ensembl chr14:140,497,457...140,511,733 		JBrowse link
G DPYSL5 dihydropyrimidinase like 5 NOT|involved_in IBA GO_Central GO_REF:0000033 NCBI chr 3:112,155,538...112,252,963
Ensembl chr 3:112,156,676...112,252,968 		JBrowse link
pyrimidine nucleobase metabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G RRM1 ribonucleotide reductase catalytic subunit M1 ISO orotic acid RGD PMID:10204803 RGD:5133695 NCBI chr 9:6,026,151...6,065,211
Ensembl chr 9:6,025,073...6,065,143 		JBrowse link
G RRM2 ribonucleotide reductase regulatory subunit M2 ISO orotic acid RGD PMID:10204803 RGD:5133695 NCBI chr 3:126,357,198...126,367,145
Ensembl chr 3:126,347,819...126,365,644 		JBrowse link
G TYMS thymidylate synthetase ISO 5-fluorocytosine RGD PMID:9524100 RGD:5133447 NCBI chr 6:105,642,730...105,660,279
Ensembl chr 6:105,642,381...105,660,578 		JBrowse link
thymine catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ALDH6A1 aldehyde dehydrogenase 6 family member A1 involved_in ISO
IBA
IEA		 RGD
GO_Central
Ensembl		 PMID:2768248 GO_REF:0000033 GO_REF:0000107 RGD:1599052 NCBI chr 7:97,360,583...97,381,885
Ensembl chr 7:97,360,610...97,381,830 		JBrowse link
G DPYD dihydropyrimidine dehydrogenase involved_in IEA
IBA		 Ensembl
GO_Central		 GO_REF:0000033 GO_REF:0000107 NCBI chr 4:119,931,471...120,712,461
Ensembl chr 4:119,931,414...120,712,459 		JBrowse link
G DPYS dihydropyrimidinase involved_in ISO PMID:8307005 UniProt PMID:8307005 RGD:1624990 NCBI chr 4:32,791,152...32,879,489
Ensembl chr 4:32,789,460...32,879,489 		JBrowse link
thymine metabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ALDH6A1 aldehyde dehydrogenase 6 family member A1 involved_in ISO PMID:2768248 UniProt PMID:2768248 RGD:1599052 NCBI chr 7:97,360,583...97,381,885
Ensembl chr 7:97,360,610...97,381,830 		JBrowse link
uracil catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DPYD dihydropyrimidine dehydrogenase involved_in ISS
IBA
IEA		 UniProt
GO_Central
Ensembl		 GO_REF:0000024 GO_REF:0000033 GO_REF:0000107 NCBI chr 4:119,931,471...120,712,461
Ensembl chr 4:119,931,414...120,712,459 		JBrowse link
G DPYS dihydropyrimidinase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 4:32,791,152...32,879,489
Ensembl chr 4:32,789,460...32,879,489 		JBrowse link
uracil metabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DPYD dihydropyrimidine dehydrogenase ISO RGD PMID:7626590 RGD:1624989 NCBI chr 4:119,931,471...120,712,461
Ensembl chr 4:119,931,414...120,712,459 		JBrowse link
G DPYS dihydropyrimidinase ISO RGD PMID:7626590 PMID:8307005 RGD:1624989 RGD:1624990 NCBI chr 4:32,791,152...32,879,489
Ensembl chr 4:32,789,460...32,879,489 		JBrowse link
G TYMS thymidylate synthetase ISO RGD PMID:2043679 RGD:5133426 NCBI chr 6:105,642,730...105,660,279
Ensembl chr 6:105,642,381...105,660,578 		JBrowse link
xanthine biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ADA adenosine deaminase acts_upstream_of_or_within IEA Ensembl GO_REF:0000107 NCBI chr17:47,044,492...47,072,232
Ensembl chr17:47,044,497...47,072,245 		JBrowse link
xanthine catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G UOX urate oxidase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 6:129,343,632...129,374,833
Ensembl chr 6:129,343,592...129,375,724 		JBrowse link
G URAD ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in IEA Ensembl GO_REF:0000107 NCBI chr11:5,353,524...5,363,481 JBrowse link
G XDH xanthine dehydrogenase involved_in IEA
IBA		 Ensembl
GO_Central		 GO_REF:0000033 GO_REF:0000107 NCBI chr 3:107,987,060...108,052,043
Ensembl chr 3:107,987,126...108,053,169 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 18944
    cellular process 18487
      metabolic process 11698
        small molecule metabolic process 1699
          nucleobase-containing small molecule metabolic process 617
            nucleobase metabolic process 42
              nucleobase biosynthetic process + 18
              nucleobase catabolic process + 12
              purine nucleobase metabolic process + 22
              pyrimidine nucleobase metabolic process + 21
Path 2
Term Annotations click to browse term
  biological_process 18944
    cellular process 18487
      metabolic process 11698
        primary metabolic process 10348
          nucleobase-containing compound metabolic process 6273
            nucleobase-containing small molecule metabolic process 617
              nucleobase metabolic process 42
                nucleobase biosynthetic process + 18
                nucleobase catabolic process + 12
                purine nucleobase metabolic process + 22
                pyrimidine nucleobase metabolic process + 21
paths to the root