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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
IEA		 RGD
TreeGrafter
Ensembl
InterPro		 PMID:1476792 GO_REF:0000002 GO_REF:0000107 GO_REF:0000118 RGD:5132591 NCBI chr2A:27,218,699...27,245,156
Ensembl chr2A:27,306,527...27,332,804 		JBrowse link
G CMPK1 cytidine/uridine monophosphate kinase 1 involved_in IEA InterPro GO_REF:0000002 NCBI chr 1:46,642,602...46,673,568 JBrowse link
G CPS1 carbamoyl-phosphate synthase 1 involved_in IEA InterPro GO_REF:0000002 NCBI chr2B:97,735,486...97,936,623
Ensembl chr2B:216,136,857...216,337,728 		JBrowse link
G DHODH dihydroorotate dehydrogenase (quinone) involved_in ISO
IEA		 RGD
TreeGrafter
InterPro		 PMID:1476792 GO_REF:0000002 GO_REF:0000118 RGD:5132591 NCBI chr16:52,977,879...52,994,496
Ensembl chr16:71,854,238...71,870,673 		JBrowse link
G LOC100977684 UMP-CMP kinase involved_in IEA InterPro GO_REF:0000002 NCBI chr19:31,871,009...31,873,992 JBrowse link
G MTOR mechanistic target of rapamycin kinase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 1:9,871,700...10,028,704
Ensembl chr 1:11,093,765...11,249,841 		JBrowse link
G UMPS uridine monophosphate synthetase involved_in IEA InterPro GO_REF:0000002 NCBI chr 3:121,832,758...121,851,707
Ensembl chr 3:128,731,355...128,745,029 		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 IEA TreeGrafter GO_REF:0000118 NCBI chr21:19,871,656...19,909,893
Ensembl chr21:33,244,457...33,282,331 		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 involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:8894695)
(PMID:8643571), (PMID:8894695)		 Ensembl
MGI		 PMID:8643571 PMID:8894695 GO_REF:0000107 NCBI chr16:69,522,628...69,525,138
Ensembl chr16:89,179,020...89,181,504 		JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 acts_upstream_of_or_within
involved_in		 ISO
IEA		 (PMID:8894695) MGI
Ensembl		 PMID:8894695 GO_REF:0000107 NCBI chr  X:123,609,248...123,650,102
Ensembl chr  X:133,916,681...133,948,197 		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 InterPro
TreeGrafter		 GO_REF:0000002 GO_REF:0000118 NCBI chr16:69,522,628...69,525,138
Ensembl chr16:89,179,020...89,181,504 		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 involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:15284227) Ensembl
MGI		 PMID:15284227 GO_REF:0000107 NCBI chr22:3,883,119...3,990,368
Ensembl chr22:20,365,487...20,450,335 		JBrowse link
G TET2 tet methylcytosine dioxygenase 2 acts_upstream_of_or_within ISO (PMID:21803851) MGI PMID:21803851 NCBI chr 4:97,612,439...97,745,544
Ensembl chr 4:108,269,082...108,358,400 		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 ISO (PMID:5560407) MGI PMID:5560407 NCBI chr10:99,687,366...99,790,744
Ensembl chr10:103,148,578...103,251,513 		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 UniProt
Ensembl
InterPro		 GO_REF:0000002 GO_REF:0000041 GO_REF:0000104 GO_REF:0000107 NCBI chr 9:52,559,752...52,662,886
Ensembl chr 9:70,891,319...70,994,574 		JBrowse link
G URAD ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in ISO (PMID:16462750) MGI PMID:16462750 NCBI chr13:9,259,104...9,270,066 JBrowse link
G XDH xanthine dehydrogenase involved_in IEA Ensembl GO_REF:0000107 NCBI chr2A:31,356,011...31,435,111
Ensembl chr2A:31,425,183...31,504,455 		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 IEA TreeGrafter GO_REF:0000118 NCBI chr 9:52,559,752...52,662,886
Ensembl chr 9:70,891,319...70,994,574 		JBrowse link
G KDM1A lysine demethylase 1A ISO RGD PMID:20418916 RGD:9588315 NCBI chr 1:22,205,624...22,269,571
Ensembl chr 1:23,153,066...23,217,692 		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 IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chr  X:123,609,248...123,650,102
Ensembl chr  X:133,916,681...133,948,197 		JBrowse link
G PRTFDC1 phosphoribosyl transferase domain containing 1 NOT|involved_in ISO (PMID:21054786) UniProt PMID:21054786 NCBI chr10:25,023,015...25,127,770
Ensembl chr10:25,393,227...25,497,054 		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 involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:10720488) Ensembl
MGI		 PMID:10720488 GO_REF:0000107 NCBI chr20:40,950,238...40,982,481
Ensembl chr20:42,044,613...42,076,868 		JBrowse link
G PRPS1 phosphoribosyl pyrophosphate synthetase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:96,720,988...96,743,594
Ensembl chr  X:107,094,898...107,117,117 		JBrowse link
hypoxanthine catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G URAD ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in ISO (PMID:16462750) MGI PMID:16462750 NCBI chr13:9,259,104...9,270,066 JBrowse link
G XDH xanthine dehydrogenase involved_in ISO
IEA		 RGD
Ensembl		 PMID:232638 GO_REF:0000107 RGD:13210503 NCBI chr2A:31,356,011...31,435,111
Ensembl chr2A:31,425,183...31,504,455 		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		 (PMID:10037486)
(PMID:3029599)		 RGD
Ensembl
TreeGrafter
MGI		 PMID:3029599 PMID:6206848 PMID:10037486 GO_REF:0000107 GO_REF:0000118 RGD:1580844 NCBI chr  X:123,609,248...123,650,102
Ensembl chr  X:133,916,681...133,948,197 		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 IEA TreeGrafter GO_REF:0000118 NCBI chr20:40,950,238...40,982,481
Ensembl chr20:42,044,613...42,076,868 		JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:123,609,248...123,650,102
Ensembl chr  X:133,916,681...133,948,197 		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 InterPro
UniProt		 GO_REF:0000002 GO_REF:0000104 NCBI chr21:19,871,656...19,909,893
Ensembl chr21:33,244,457...33,282,331 		JBrowse link
G LOC100993147 phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 4:67,461,799...67,491,300
Ensembl chr 4:74,031,397...74,059,857 		JBrowse link
G PPAT phosphoribosyl pyrophosphate amidotransferase involved_in IEA InterPro GO_REF:0000002 NCBI chr 4:67,491,407...67,533,822
Ensembl chr 4:74,059,966...74,102,002 		JBrowse link
G SHMT1 serine hydroxymethyltransferase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr17:32,870,949...32,905,690
Ensembl chr17:37,849,206...37,884,220 		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 1:99,736,145...100,576,663
Ensembl chr 1:98,457,934...99,300,100 		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 chr 3:129,392,396...129,465,962
Ensembl chr 3:136,713,816...136,764,655 		JBrowse link
G ADK adenosine kinase involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr10:70,672,967...71,236,950
Ensembl chr10:73,342,900...73,902,490 		JBrowse link
G GMPR guanosine monophosphate reductase involved_in IEA UniProt GO_REF:0000043 NCBI chr 6:16,094,994...16,151,499
Ensembl chr 6:16,460,651...16,515,796 		JBrowse link
G GMPR2 guanosine monophosphate reductase 2 involved_in IEA UniProt GO_REF:0000043 NCBI chr14:5,008,664...5,015,461
Ensembl chr14:23,132,227...23,139,044 		JBrowse link
G PRPS1 phosphoribosyl pyrophosphate synthetase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:96,720,988...96,743,594
Ensembl chr  X:107,094,898...107,117,117 		JBrowse link
G TTR transthyretin involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr18:24,809,707...24,816,713
Ensembl chr18:28,407,893...28,414,960 		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 IEA TreeGrafter GO_REF:0000118 NCBI chr 1:40,275,581...40,308,421
Ensembl chr 1:41,592,509...41,624,455 		JBrowse link
G CTPS2 CTP synthase 2 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr  X:9,209,727...9,332,641
Ensembl chr  X:16,579,409...16,693,184 		JBrowse link
G UMPS uridine monophosphate synthetase involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr 3:121,832,758...121,851,707
Ensembl chr 3:128,731,355...128,745,029 		JBrowse link
pyrimidine nucleobase catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DPYD dihydropyrimidine dehydrogenase acts_upstream_of_or_within
involved_in		 ISO
IEA		 (PMID:12651209) RGD
MGI
Ensembl		 PMID:1629785 PMID:12651209 GO_REF:0000107 RGD:1599794 NCBI chr 1:99,736,145...100,576,663
Ensembl chr 1:98,457,934...99,300,100 		JBrowse link
G DPYS dihydropyrimidinase involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chr 8:101,008,090...101,096,234
Ensembl chr 8:103,160,922...103,248,303 		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 chr11:3,956,528...3,999,205
Ensembl chr11:4,068,119...4,110,474 		JBrowse link
G RRM2 ribonucleotide reductase regulatory subunit M2 ISO orotic acid RGD PMID:10204803 RGD:5133695 NCBI chr2A:10,119,508...10,128,318
Ensembl chr2A:10,275,598...10,284,640 		JBrowse link
G TYMS thymidylate synthetase ISO 5-fluorocytosine RGD PMID:9524100 RGD:5133447 NCBI chr18:13,653,085...13,668,478
Ensembl chr18:17,295,182...17,310,320 		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
IEA		 RGD
TreeGrafter
Ensembl		 PMID:2768248 GO_REF:0000107 GO_REF:0000118 RGD:1599052 NCBI chr14:54,616,531...54,643,346
Ensembl chr14:73,472,255...73,495,734 		JBrowse link
G DPYD dihydropyrimidine dehydrogenase involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chr 1:99,736,145...100,576,663
Ensembl chr 1:98,457,934...99,300,100 		JBrowse link
G DPYS dihydropyrimidinase involved_in ISO PMID:8307005 UniProt PMID:8307005 RGD:1624990 NCBI chr 8:101,008,090...101,096,234
Ensembl chr 8:103,160,922...103,248,303 		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 chr14:54,616,531...54,643,346
Ensembl chr14:73,472,255...73,495,734 		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 IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chr 1:99,736,145...100,576,663
Ensembl chr 1:98,457,934...99,300,100 		JBrowse link
G DPYS dihydropyrimidinase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 8:101,008,090...101,096,234
Ensembl chr 8:103,160,922...103,248,303 		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 1:99,736,145...100,576,663
Ensembl chr 1:98,457,934...99,300,100 		JBrowse link
G DPYS dihydropyrimidinase ISO RGD PMID:7626590 PMID:8307005 RGD:1624989 RGD:1624990 NCBI chr 8:101,008,090...101,096,234
Ensembl chr 8:103,160,922...103,248,303 		JBrowse link
G TYMS thymidylate synthetase ISO RGD PMID:2043679 RGD:5133426 NCBI chr18:13,653,085...13,668,478
Ensembl chr18:17,295,182...17,310,320 		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 involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:10720488) Ensembl
MGI		 PMID:10720488 GO_REF:0000107 NCBI chr20:40,950,238...40,982,481
Ensembl chr20:42,044,613...42,076,868 		JBrowse link
xanthine catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G URAD ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in ISO (PMID:16462750) MGI PMID:16462750 NCBI chr13:9,259,104...9,270,066 JBrowse link
G XDH xanthine dehydrogenase involved_in IEA Ensembl GO_REF:0000107 NCBI chr2A:31,356,011...31,435,111
Ensembl chr2A:31,425,183...31,504,455 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 16644
    cellular process 16207
      metabolic process 10770
        small molecule metabolic process 1685
          nucleobase-containing small molecule metabolic process 618
            nucleobase metabolic process 36
              nucleobase biosynthetic process + 18
              nucleobase catabolic process + 6
              purine nucleobase metabolic process + 20
              pyrimidine nucleobase metabolic process + 17
Path 2
Term Annotations click to browse term
  biological_process 16644
    cellular process 16207
      metabolic process 10770
        primary metabolic process 9466
          nucleobase-containing compound metabolic process 5308
            nucleobase-containing small molecule metabolic process 618
              nucleobase metabolic process 36
                nucleobase biosynthetic process + 18
                nucleobase catabolic process + 6
                purine nucleobase metabolic process + 20
                pyrimidine nucleobase metabolic process + 17
paths to the root