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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
InterPro
Ensembl		 PMID:1476792 GO_REF:0000002 GO_REF:0000107 GO_REF:0000118 RGD:5132591 NCBI chrNW_004936493:5,308,268...5,332,934
Ensembl chrNW_004936493:5,310,228...5,332,918 		JBrowse link
G Cmpk1 cytidine/uridine monophosphate kinase 1 involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004936474:28,147,459...28,180,779
Ensembl chrNW_004936474:28,147,085...28,182,043 		JBrowse link
G Cps1 carbamoyl-phosphate synthase 1 involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004936586:5,739,038...5,850,317
Ensembl chrNW_004936586:5,739,337...5,850,312 		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 chrNW_004936475:21,863,627...21,877,660
Ensembl chrNW_004936475:21,862,166...21,877,711 		JBrowse link
G Mtor mechanistic target of rapamycin kinase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936474:158,376...282,310
Ensembl chrNW_004936474:157,590...282,342 		JBrowse link
G Umps uridine monophosphate synthetase involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004936725:553,278...564,846
Ensembl chrNW_004936725:549,804...565,141 		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 chrNW_004936500:8,750,928...8,782,303
Ensembl chrNW_004936500:8,753,463...8,786,236 		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:8643571), (PMID:8894695)
(PMID:8894695)		 Ensembl
MGI		 PMID:8643571 PMID:8894695 GO_REF:0000107 NCBI chrNW_004936641:913,674...916,312
Ensembl chrNW_004936641:913,475...918,748 		JBrowse link
G Hprt1 hypoxanthine phosphoribosyltransferase 1 involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:8894695) Ensembl
MGI		 PMID:8894695 GO_REF:0000107 NCBI chrNW_004936691:650,753...694,362
Ensembl chrNW_004936691:652,769...694,463 		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 chrNW_004936641:913,674...916,312
Ensembl chrNW_004936641:913,475...918,748 		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 chrNW_004936619:1,889,841...1,932,646
Ensembl chrNW_004936619:1,889,708...1,932,646 		JBrowse link
G Tet2 tet methylcytosine dioxygenase 2 acts_upstream_of_or_within ISO (PMID:21803851) MGI PMID:21803851 NCBI chrNW_004936752:440,137...577,339
Ensembl chrNW_004936752:440,136...577,615 		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 chrNW_004936600:2,828,277...2,892,795 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:0000107 NCBI chrNW_004936503:8,191,925...8,279,806
Ensembl chrNW_004936503:8,192,049...8,278,790 		JBrowse link
G LOC101966455 uricase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936608:1,213,940...1,232,214 JBrowse link
G Urad ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936472:23,151,674...23,161,292 JBrowse link
G Xdh xanthine dehydrogenase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936493:1,762,814...1,824,501
Ensembl chrNW_004936493:1,762,869...1,823,238 		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 chrNW_004936503:8,191,925...8,279,806
Ensembl chrNW_004936503:8,192,049...8,278,790 		JBrowse link
G Kdm1a lysine demethylase 1A ISO RGD PMID:20418916 RGD:9588315 NCBI chrNW_004936474:8,262,913...8,319,089
Ensembl chrNW_004936474:8,262,885...8,319,092 		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 chrNW_004936691:650,753...694,362
Ensembl chrNW_004936691:652,769...694,463 		JBrowse link
G Prtfdc1 phosphoribosyl transferase domain containing 1 NOT|involved_in ISO (PMID:21054786) UniProt PMID:21054786 NCBI chrNW_004936484:568,056...650,820
Ensembl chrNW_004936484:566,543...650,896 		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 ISO (PMID:10720488) MGI PMID:10720488 NCBI chrNW_004936530:2,217,713...2,224,070 JBrowse link
G Prps1 phosphoribosyl pyrophosphate synthetase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936499:7,114,838...7,136,468
Ensembl chrNW_004936499:7,115,780...7,136,449 		JBrowse link
hypoxanthine catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC101966455 uricase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936608:1,213,940...1,232,214 JBrowse link
G Urad ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936472:23,151,674...23,161,292 JBrowse link
G Xdh xanthine dehydrogenase involved_in ISO
IEA		 RGD
Ensembl		 PMID:232638 GO_REF:0000107 RGD:13210503 NCBI chrNW_004936493:1,762,814...1,824,501
Ensembl chrNW_004936493:1,762,869...1,823,238 		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
TreeGrafter
MGI
Ensembl		 PMID:3029599 PMID:6206848 PMID:10037486 GO_REF:0000107 GO_REF:0000118 RGD:1580844 NCBI chrNW_004936691:650,753...694,362
Ensembl chrNW_004936691:652,769...694,463 		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 chrNW_004936530:2,217,713...2,224,070 JBrowse link
G Hprt1 hypoxanthine phosphoribosyltransferase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936691:650,753...694,362
Ensembl chrNW_004936691:652,769...694,463 		JBrowse link
G LOC101972479 adenosine deaminase-like involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004936530:2,034,514...2,041,099 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 chrNW_004936500:8,750,928...8,782,303
Ensembl chrNW_004936500:8,753,463...8,786,236 		JBrowse link
G LOC101961407 phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936482:18,649,093...18,664,629
Ensembl chrNW_004936482:18,626,015...18,667,164 		JBrowse link
G Ppat phosphoribosyl pyrophosphate amidotransferase involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004936482:18,606,124...18,648,989
Ensembl chrNW_004936482:18,606,124...18,648,681 		JBrowse link
G Shmt1 serine hydroxymethyltransferase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936741:1,849,239...1,877,724
Ensembl chrNW_004936741:1,849,609...1,877,727 		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 chrNW_004936537:1,660,461...2,439,305
Ensembl chrNW_004936537:1,660,477...2,439,273 		JBrowse link
G LOC101966455 uricase involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004936608:1,213,940...1,232,214 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 IEA Ensembl GO_REF:0000107 NCBI chrNW_004936529:5,661,772...5,723,108
Ensembl chrNW_004936529:5,661,702...5,725,363 		JBrowse link
G Adk adenosine kinase involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004936521:4,560,078...5,023,780
Ensembl chrNW_004936521:4,557,971...5,023,800 		JBrowse link
G Gmpr guanosine monophosphate reductase involved_in IEA UniProt GO_REF:0000043 NCBI chrNW_004936552:2,458,728...2,496,145
Ensembl chrNW_004936552:2,458,698...2,497,191 		JBrowse link
G Gmpr2 guanosine monophosphate reductase 2 involved_in IEA UniProt GO_REF:0000043 NCBI chrNW_004936722:323,917...330,648 JBrowse link
G LOC101955123 GMP reductase 2-like involved_in IEA UniProt GO_REF:0000043 NCBI chrNW_004936633:2,678,654...2,680,171 JBrowse link
G LOC101958661 5-hydroxyisourate hydrolase-like involved_in IEA InterPro
TreeGrafter
UniProt		 GO_REF:0000002 GO_REF:0000043 GO_REF:0000118 NCBI chrNW_004937382:33,496...36,920 JBrowse link
G LOC101960605 5-hydroxyisourate hydrolase-like involved_in IEA InterPro
TreeGrafter
UniProt		 GO_REF:0000002 GO_REF:0000043 GO_REF:0000118 NCBI chrNW_004936641:89,784...92,738 JBrowse link
G LOC101966455 uricase involved_in IEA UniProt GO_REF:0000043 NCBI chrNW_004936608:1,213,940...1,232,214 JBrowse link
G Prps1 phosphoribosyl pyrophosphate synthetase 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936499:7,114,838...7,136,468
Ensembl chrNW_004936499:7,115,780...7,136,449 		JBrowse link
G Ttr transthyretin involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004936682:1,628,489...1,635,495
Ensembl chrNW_004936682:1,628,341...1,635,566 		JBrowse link
G Urad ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in IEA UniProt GO_REF:0000043 NCBI chrNW_004936472:23,151,674...23,161,292 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 chrNW_004936474:22,611,037...22,633,208
Ensembl chrNW_004936474:22,602,800...22,633,169 		JBrowse link
G Ctps2 CTP synthase 2 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004936470:5,889,393...5,988,558
Ensembl chrNW_004936470:5,888,469...5,988,525 		JBrowse link
G Umps uridine monophosphate synthetase involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004936725:553,278...564,846
Ensembl chrNW_004936725:549,804...565,141 		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 chrNW_004936537:1,660,461...2,439,305
Ensembl chrNW_004936537:1,660,477...2,439,273 		JBrowse link
G Dpys dihydropyrimidinase involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chrNW_004936470:39,564,431...39,637,394
Ensembl chrNW_004936470:39,564,335...39,637,544 		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 chrNW_004936498:815,401...848,749
Ensembl chrNW_004936498:815,399...848,793 		JBrowse link
G Rrm2 ribonucleotide reductase regulatory subunit M2 ISO orotic acid RGD PMID:10204803 RGD:5133695 NCBI chrNW_004936532:6,348,041...6,390,144 JBrowse link
G Tymp thymidine phosphorylase involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004936629:315,609...320,356
Ensembl chrNW_004936629:315,610...319,076 		JBrowse link
G Tyms thymidylate synthetase ISO 5-fluorocytosine RGD PMID:9524100 RGD:5133447 NCBI chrNW_004936550:33,797...42,233
Ensembl chrNW_004936550:34,048...41,840 		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 chrNW_004936488:3,320,357...3,340,463
Ensembl chrNW_004936488:3,318,422...3,340,626 		JBrowse link
G Dpyd dihydropyrimidine dehydrogenase involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chrNW_004936537:1,660,461...2,439,305
Ensembl chrNW_004936537:1,660,477...2,439,273 		JBrowse link
G Dpys dihydropyrimidinase involved_in ISO PMID:8307005 UniProt PMID:8307005 RGD:1624990 NCBI chrNW_004936470:39,564,431...39,637,394
Ensembl chrNW_004936470:39,564,335...39,637,544 		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 chrNW_004936488:3,320,357...3,340,463
Ensembl chrNW_004936488:3,318,422...3,340,626 		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 chrNW_004936537:1,660,461...2,439,305
Ensembl chrNW_004936537:1,660,477...2,439,273 		JBrowse link
G Dpys dihydropyrimidinase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936470:39,564,431...39,637,394
Ensembl chrNW_004936470:39,564,335...39,637,544 		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 chrNW_004936537:1,660,461...2,439,305
Ensembl chrNW_004936537:1,660,477...2,439,273 		JBrowse link
G Dpys dihydropyrimidinase ISO RGD PMID:7626590 PMID:8307005 RGD:1624989 RGD:1624990 NCBI chrNW_004936470:39,564,431...39,637,394
Ensembl chrNW_004936470:39,564,335...39,637,544 		JBrowse link
G Tyms thymidylate synthetase ISO RGD PMID:2043679 RGD:5133426 NCBI chrNW_004936550:33,797...42,233
Ensembl chrNW_004936550:34,048...41,840 		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 ISO (PMID:10720488) MGI PMID:10720488 NCBI chrNW_004936530:2,217,713...2,224,070 JBrowse link
xanthine catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC101966455 uricase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936608:1,213,940...1,232,214 JBrowse link
G Urad ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936472:23,151,674...23,161,292 JBrowse link
G Xdh xanthine dehydrogenase involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004936493:1,762,814...1,824,501
Ensembl chrNW_004936493:1,762,869...1,823,238 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 16037
    cellular process 15650
      metabolic process 9980
        small molecule metabolic process 1629
          nucleobase-containing small molecule metabolic process 596
            nucleobase metabolic process 41
              nucleobase biosynthetic process + 18
              nucleobase catabolic process + 7
              purine nucleobase metabolic process + 25
              pyrimidine nucleobase metabolic process + 17
Path 2
Term Annotations click to browse term
  biological_process 16037
    cellular process 15650
      metabolic process 9980
        primary metabolic process 8867
          nucleobase-containing compound metabolic process 4939
            nucleobase-containing small molecule metabolic process 596
              nucleobase metabolic process 41
                nucleobase biosynthetic process + 18
                nucleobase catabolic process + 7
                purine nucleobase metabolic process + 25
                pyrimidine nucleobase metabolic process + 17
paths to the root