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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		 PMID:1476792 GO_REF:0000002 GO_REF:0000118 RGD:5132591 NCBI chrNW_004624738:9,318,213...9,340,765
Ensembl chrNW_004624738:9,318,232...9,340,925 		JBrowse link
G Cps1 carbamoyl-phosphate synthase 1 involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004624765:5,527,029...5,652,343
Ensembl chrNW_004624765:5,528,112...5,651,415 		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_004624746:14,254,811...14,268,034
Ensembl chrNW_004624746:14,254,193...14,268,034 		JBrowse link
G Mtor mechanistic target of rapamycin kinase involved_in ISO (PMID:23429704) CACAO PMID:23429704 NCBI chrNW_004624818:1,570,155...1,698,264
Ensembl chrNW_004624818:1,570,276...1,698,259 		JBrowse link
G Umps uridine monophosphate synthetase involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004624731:761,235...780,355
Ensembl chrNW_004624731:761,210...779,321 		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_004624745:21,735,431...21,763,330
Ensembl chrNW_004624745:21,734,282...21,762,734 		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 ISO (PMID:8643571), (PMID:8894695)
(PMID:8894695)		 MGI PMID:8643571 PMID:8894695 NCBI chrNW_004624746:805,742...807,963
Ensembl chrNW_004624746:805,758...807,963 		JBrowse link
G Hprt1 hypoxanthine phosphoribosyltransferase 1 acts_upstream_of_or_within ISO (PMID:8894695) MGI PMID:8894695 NCBI chrNW_004624797:14,148,580...14,184,471 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_004624746:805,742...807,963
Ensembl chrNW_004624746:805,758...807,963 		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 chrNW_004624747:1,296,062...1,389,674
Ensembl chrNW_004624747:1,296,221...1,389,757 		JBrowse link
G Tet2 tet methylcytosine dioxygenase 2 acts_upstream_of_or_within ISO (PMID:21803851) MGI PMID:21803851 NCBI chrNW_004624830:3,446,331...3,543,450
Ensembl chrNW_004624830:3,446,141...3,519,084 		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_004624831:2,374,341...2,468,819
Ensembl chrNW_004624831:2,371,804...2,529,726 		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
InterPro		 GO_REF:0000002 GO_REF:0000041 GO_REF:0000104 NCBI chrNW_004624736:836,283...914,616
Ensembl chrNW_004624736:836,286...914,409 		JBrowse link
G Urad ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in ISO (PMID:16462750) MGI PMID:16462750 NCBI chrNW_004624776:10,533,806...10,543,091
Ensembl chrNW_004624776:10,533,806...10,543,091 		JBrowse link
G Xdh xanthine dehydrogenase involved_in ISO PMID:3443108
(PMID:1590774)		 MGI PMID:1590774 PMID:3443108 RGD:42721989 NCBI chrNW_004624738:13,116,317...13,180,935
Ensembl chrNW_004624738:13,115,982...13,181,352 		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_004624736:836,283...914,616
Ensembl chrNW_004624736:836,286...914,409 		JBrowse link
G Kdm1a lysine demethylase 1A ISO RGD PMID:20418916 RGD:9588315 NCBI chrNW_004624764:7,664,550...7,742,494 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 TreeGrafter GO_REF:0000118 NCBI chrNW_004624797:14,148,580...14,184,471 JBrowse link
G Prtfdc1 phosphoribosyl transferase domain containing 1 NOT|involved_in ISO (PMID:21054786) UniProt PMID:21054786 NCBI chrNW_004624796:4,014,076...4,095,920 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_004624790:9,809,550...9,829,199
Ensembl chrNW_004624790:9,809,492...9,829,883 		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 chrNW_004624776:10,533,806...10,543,091
Ensembl chrNW_004624776:10,533,806...10,543,091 		JBrowse link
G Xdh xanthine dehydrogenase involved_in ISO (PMID:30936145)
(PMID:1590774)
(PMID:1619276)
PMID:3443108		 RGD
MGI		 PMID:232638 PMID:1590774 PMID:1619276 PMID:3443108 PMID:30936145 RGD:13210503 RGD:42721989 NCBI chrNW_004624738:13,116,317...13,180,935
Ensembl chrNW_004624738:13,115,982...13,181,352 		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:3029599)
(PMID:10037486)		 RGD
TreeGrafter
MGI		 PMID:3029599 PMID:6206848 PMID:10037486 GO_REF:0000118 RGD:1580844 NCBI chrNW_004624797:14,148,580...14,184,471 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_004624790:9,809,550...9,829,199
Ensembl chrNW_004624790:9,809,492...9,829,883 		JBrowse link
G Hprt1 hypoxanthine phosphoribosyltransferase 1 involved_in ISO (PMID:19527031) UniProt PMID:19527031 NCBI chrNW_004624797:14,148,580...14,184,471 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_004624745:21,735,431...21,763,330
Ensembl chrNW_004624745:21,734,282...21,762,734 		JBrowse link
G Paics phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase involved_in ISO (PMID:31600779) UniProt PMID:31600779 NCBI chrNW_004624761:12,954,309...12,980,352
Ensembl chrNW_004624761:12,954,309...12,980,381 		JBrowse link
G Shmt1 serine hydroxymethyltransferase 1 involved_in ISO (PMID:11516159) UniProt PMID:11516159 NCBI chrNW_004624849:3,108,875...3,146,669
Ensembl chrNW_004624849:3,114,876...3,146,248 		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_004624730:8,375,429...8,441,375
Ensembl chrNW_004624730:8,375,258...8,432,302 		JBrowse link
G Adk adenosine kinase involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004624754:7,612,817...8,156,038
Ensembl chrNW_004624754:7,612,881...8,156,681 		JBrowse link
G Gmpr guanosine monophosphate reductase involved_in IEA UniProt GO_REF:0000043 NCBI chrNW_004624756:10,170,074...10,213,258
Ensembl chrNW_004624756:10,169,365...10,213,419 		JBrowse link
G Gmpr2 guanosine monophosphate reductase 2 involved_in IEA UniProt GO_REF:0000043 NCBI chrNW_004624820:8,312,253...8,319,585
Ensembl chrNW_004624820:8,312,386...8,319,799 		JBrowse link
G LOC101722738 5-hydroxyisourate hydrolase involved_in IEA InterPro
TreeGrafter
UniProt		 GO_REF:0000002 GO_REF:0000043 GO_REF:0000118 NCBI chrNW_004624746:26,873...29,564 JBrowse link
G Ttr transthyretin involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004624770:1,255,401...1,262,019
Ensembl chrNW_004624770:1,251,716...1,262,213 		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_004624892:376,800...421,850 JBrowse link
G Ctps2 CTP synthase 2 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004624829:1,373,568...1,438,052
Ensembl chrNW_004624829:1,386,544...1,438,052 		JBrowse link
G Umps uridine monophosphate synthetase involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004624731:761,235...780,355
Ensembl chrNW_004624731:761,210...779,321 		JBrowse link
pyrimidine nucleobase catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dpys dihydropyrimidinase involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004624763:20,618,515...20,680,790
Ensembl chrNW_004624763:20,620,380...20,680,782 		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_004624817:5,523,648...5,568,997
Ensembl chrNW_004624817:5,523,665...5,568,994 		JBrowse link
G Rrm2 ribonucleotide reductase regulatory subunit M2 ISO orotic acid RGD PMID:10204803 RGD:5133695 NCBI chrNW_004624865:4,984,353...4,990,187
Ensembl chrNW_004624865:4,985,620...4,990,120 		JBrowse link
G Tymp thymidine phosphorylase involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004624752:251,670...256,243
Ensembl chrNW_004624752:252,937...256,244 		JBrowse link
G Tyms thymidylate synthetase ISO 5-fluorocytosine RGD PMID:9524100 RGD:5133447 NCBI chrNW_004624770:11,138,673...11,149,600
Ensembl chrNW_004624770:11,138,652...11,149,600 		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		 PMID:2768248 GO_REF:0000118 RGD:1599052 NCBI chrNW_004624734:27,499,376...27,525,783
Ensembl chrNW_004624734:27,499,411...27,524,419 		JBrowse link
G Dpys dihydropyrimidinase involved_in ISO PMID:8307005 UniProt PMID:8307005 RGD:1624990 NCBI chrNW_004624763:20,618,515...20,680,790
Ensembl chrNW_004624763:20,620,380...20,680,782 		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_004624734:27,499,376...27,525,783
Ensembl chrNW_004624734:27,499,411...27,524,419 		JBrowse link
uracil catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dpys dihydropyrimidinase involved_in ISO (PMID:10410956)
PMID:8307005
(PMID:18075467)		 UniProt PMID:8307005 PMID:10410956 PMID:18075467 RGD:1624990 NCBI chrNW_004624763:20,618,515...20,680,790
Ensembl chrNW_004624763:20,620,380...20,680,782 		JBrowse link
uracil metabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dpys dihydropyrimidinase ISO RGD PMID:7626590 PMID:8307005 RGD:1624989 RGD:1624990 NCBI chrNW_004624763:20,618,515...20,680,790
Ensembl chrNW_004624763:20,620,380...20,680,782 		JBrowse link
G Tyms thymidylate synthetase ISO RGD PMID:2043679 RGD:5133426 NCBI chrNW_004624770:11,138,673...11,149,600
Ensembl chrNW_004624770:11,138,652...11,149,600 		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_004624790:9,809,550...9,829,199
Ensembl chrNW_004624790:9,809,492...9,829,883 		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 chrNW_004624776:10,533,806...10,543,091
Ensembl chrNW_004624776:10,533,806...10,543,091 		JBrowse link
G Xdh xanthine dehydrogenase involved_in ISO PMID:15878860
(PMID:17301077), (PMID:8670112)
(PMID:1590774)
PMID:3443108		 UniProt
MGI		 PMID:1590774 PMID:3443108 PMID:8670112 PMID:15878860 PMID:17301077 RGD:42721989 RGD:8553512 NCBI chrNW_004624738:13,116,317...13,180,935
Ensembl chrNW_004624738:13,115,982...13,181,352 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 15172
    cellular process 14790
      metabolic process 9450
        small molecule metabolic process 1539
          nucleobase-containing small molecule metabolic process 563
            nucleobase metabolic process 33
              nucleobase biosynthetic process + 14
              nucleobase catabolic process + 5
              purine nucleobase metabolic process + 18
              pyrimidine nucleobase metabolic process + 15
Path 2
Term Annotations click to browse term
  biological_process 15172
    cellular process 14790
      metabolic process 9450
        primary metabolic process 8379
          nucleobase-containing compound metabolic process 4594
            nucleobase-containing small molecule metabolic process 563
              nucleobase metabolic process 33
                nucleobase biosynthetic process + 14
                nucleobase catabolic process + 5
                purine nucleobase metabolic process + 18
                pyrimidine nucleobase metabolic process + 15
paths to the root