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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 chr14:80,371,154...80,399,193
Ensembl chr14:80,371,096...80,398,914 		JBrowse link
G CMPK1 cytidine/uridine monophosphate kinase 1 involved_in IEA InterPro GO_REF:0000002 NCBI chr20:85,541,796...85,584,167
Ensembl chr20:85,541,205...85,584,068 		JBrowse link
G CPS1 carbamoyl-phosphate synthase 1 involved_in IEA InterPro GO_REF:0000002 NCBI chr10:96,267,890...96,392,393
Ensembl chr10:96,267,889...96,392,206 		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 chr 5:55,161,788...55,177,383
Ensembl chr 5:55,161,916...55,180,896 		JBrowse link
G MTOR mechanistic target of rapamycin kinase involved_in IEA Ensembl GO_REF:0000107 NCBI chr20:120,522,667...120,678,988
Ensembl chr20:120,525,737...120,679,020 		JBrowse link
G UMPS uridine monophosphate synthetase involved_in IEA InterPro GO_REF:0000002 NCBI chr22:56,081,897...56,097,164
Ensembl chr22:56,082,103...56,097,105 		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 chr 2:58,641,566...58,682,014
Ensembl chr 2:58,643,877...58,683,023 		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
involved_in		 ISO
IEA		 (PMID:8643571), (PMID:8894695)
(PMID:8894695)		 MGI
Ensembl		 PMID:8643571 PMID:8894695 GO_REF:0000107 NCBI chr 5:74,196,858...74,199,789
Ensembl chr 5:74,194,013...74,199,891 		JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 acts_upstream_of_or_within ISO (PMID:8894695) MGI PMID:8894695 NCBI chr  X:109,629,674...109,671,409 JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in IEA Ensembl GO_REF:0000107 Ensembl chr  X:109,630,112...109,664,985 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 chr 5:74,196,858...74,199,789
Ensembl chr 5:74,194,013...74,199,891 		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 chr19:4,246,144...4,352,648
Ensembl chr19:4,246,122...4,353,325 		JBrowse link
G TET2 tet methylcytosine dioxygenase 2 acts_upstream_of_or_within ISO (PMID:21803851) MGI PMID:21803851 NCBI chr 7:53,193,824...53,326,813
Ensembl chr 7:53,193,941...53,326,942 		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 chr 9:96,133,873...96,325,122
Ensembl chr 9:96,135,400...96,219,956 		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 Ensembl
UniProt
InterPro		 GO_REF:0000002 GO_REF:0000041 GO_REF:0000104 GO_REF:0000107 NCBI chr12:83,195,746...83,305,181
Ensembl chr12:83,195,994...83,306,792 		JBrowse link
G LOC103224536 uricase involved_in IEA Ensembl GO_REF:0000107 NCBI chr20:48,956,328...48,989,641 JBrowse link
G URAD ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in ISO (PMID:16462750) MGI PMID:16462750 NCBI chr 3:7,092,926...7,109,949 JBrowse link
G XDH xanthine dehydrogenase involved_in IEA Ensembl GO_REF:0000107 NCBI chr14:76,084,693...76,162,840
Ensembl chr14:76,085,368...76,163,936 		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 chr12:83,195,746...83,305,181
Ensembl chr12:83,195,994...83,306,792 		JBrowse link
G KDM1A lysine demethylase 1A ISO RGD PMID:20418916 RGD:9588315 NCBI chr20:109,592,761...109,657,885
Ensembl chr20:109,593,074...109,657,839 		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 ISO (PMID:19527031) UniProt PMID:19527031 NCBI chr  X:109,629,674...109,671,409 JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 Ensembl chr  X:109,630,112...109,664,985 JBrowse link
G PRTFDC1 phosphoribosyl transferase domain containing 1 NOT|involved_in ISO (PMID:21054786) UniProt PMID:21054786 NCBI chr 9:24,568,867...24,678,020
Ensembl chr 9:24,568,692...24,677,550 		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 chr 2:19,167,209...19,200,233 JBrowse link
G PRPS1 phosphoribosyl pyrophosphate synthetase 1 involved_in ISO (PMID:17701896) UniProt PMID:17701896 NCBI chr  X:95,452,481...95,475,933 JBrowse link
G PRPS1 phosphoribosyl pyrophosphate synthetase 1 involved_in IEA Ensembl GO_REF:0000107 Ensembl chr  X:95,452,310...95,476,499 JBrowse link
hypoxanthine catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC103224536 uricase involved_in IEA Ensembl GO_REF:0000107 NCBI chr20:48,956,328...48,989,641 JBrowse link
G URAD ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in ISO (PMID:16462750) MGI PMID:16462750 NCBI chr 3:7,092,926...7,109,949 JBrowse link
G XDH xanthine dehydrogenase involved_in ISO
IEA		 RGD
Ensembl		 PMID:232638 GO_REF:0000107 RGD:13210503 NCBI chr14:76,084,693...76,162,840
Ensembl chr14:76,085,368...76,163,936 		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 (PMID:9824441)
(PMID:3029599)
(PMID:10037486)		 RGD
UniProt
MGI		 PMID:3029599 PMID:6206848 PMID:9824441 PMID:10037486 RGD:1580844 NCBI chr  X:109,629,674...109,671,409 JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 Ensembl chr  X:109,630,112...109,664,985 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 chr 2:19,167,209...19,200,233 JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in ISO (PMID:19527031) UniProt PMID:19527031 NCBI chr  X:109,629,674...109,671,409 JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in IEA Ensembl GO_REF:0000107 Ensembl chr  X:109,630,112...109,664,985 JBrowse link
G LOC103225849 adenosine deaminase-like involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr20:56,255,834...56,268,801 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 chr 2:58,641,566...58,682,014
Ensembl chr 2:58,643,877...58,683,023 		JBrowse link
G PPAT phosphoribosyl pyrophosphate amidotransferase involved_in IEA InterPro GO_REF:0000002 NCBI chr 7:12,201,434...12,242,418
Ensembl chr 7:12,191,784...12,243,488 		JBrowse link
G SHMT1 serine hydroxymethyltransferase 1 involved_in ISO (PMID:11516159) UniProt PMID:11516159 NCBI chr16:17,371,704...17,408,499 JBrowse link
G SHMT1 serine hydroxymethyltransferase 1 involved_in IEA Ensembl GO_REF:0000107 Ensembl chr16:17,373,039...17,408,663 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 chr20:35,376,738...36,215,388
Ensembl chr20:35,377,266...36,215,679 		JBrowse link
G LOC103224536 uricase involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr20:48,956,328...48,989,641 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 chr15:57,887,528...57,934,851
Ensembl chr15:57,887,365...57,934,707 		JBrowse link
G ADK adenosine kinase involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr 9:56,659,284...57,222,279
Ensembl chr 9:56,660,129...57,222,147 		JBrowse link
G GMPR guanosine monophosphate reductase involved_in IEA UniProt GO_REF:0000043 NCBI chr17:55,843,576...55,893,334
Ensembl chr17:55,840,978...55,893,361 		JBrowse link
G GMPR2 guanosine monophosphate reductase 2 involved_in IEA UniProt GO_REF:0000043 NCBI chr24:1,215,137...1,222,219
Ensembl chr24:1,215,357...1,225,716 		JBrowse link
G LOC103224536 uricase involved_in IEA UniProt
InterPro		 GO_REF:0000002 GO_REF:0000043 NCBI chr20:48,956,328...48,989,641 JBrowse link
G PRPS1 phosphoribosyl pyrophosphate synthetase 1 involved_in ISO (PMID:8253776) UniProt PMID:8253776 NCBI chr  X:95,452,481...95,475,933 JBrowse link
G PRPS1 phosphoribosyl pyrophosphate synthetase 1 involved_in IEA Ensembl GO_REF:0000107 Ensembl chr  X:95,452,310...95,476,499 JBrowse link
G TTR transthyretin involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr18:49,124,302...49,131,495
Ensembl chr18:49,124,121...49,131,399 		JBrowse link
G URAD ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in IEA UniProt GO_REF:0000043 Ensembl chr 3:7,096,068...7,107,068 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 chr20:91,905,452...91,938,188
Ensembl chr20:91,901,771...91,937,819 		JBrowse link
G CTPS2 CTP synthase 2 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr  X:15,027,539...15,143,812
Ensembl chr  X:15,025,876...15,143,615 		JBrowse link
G UMPS uridine monophosphate synthetase involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr22:56,081,897...56,097,164
Ensembl chr22:56,082,103...56,097,105 		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 chr20:35,376,738...36,215,388
Ensembl chr20:35,377,266...36,215,679 		JBrowse link
G DPYS dihydropyrimidinase involved_in IEA TreeGrafter
Ensembl		 GO_REF:0000107 GO_REF:0000118 NCBI chr 8:99,216,623...99,303,969
Ensembl chr 8:99,216,354...99,303,282 		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 1:62,606,112...62,649,979
Ensembl chr 1:62,604,486...62,650,200 		JBrowse link
G RRM2 ribonucleotide reductase regulatory subunit M2 ISO orotic acid RGD PMID:10204803 RGD:5133695 NCBI chr14:97,512,690...97,519,734
Ensembl chr14:97,512,832...97,521,932 		JBrowse link
G TYMP thymidine phosphorylase involved_in IEA InterPro GO_REF:0000002 NCBI chr19:32,997,337...33,001,558
Ensembl chr19:32,997,304...33,001,215 		JBrowse link
G TYMS thymidylate synthetase ISO 5-fluorocytosine RGD PMID:9524100 RGD:5133447 NCBI chr18:60,030,640...60,043,297
Ensembl chr18:60,030,658...60,041,856 		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 chr24:51,273,257...51,296,661
Ensembl chr24:51,269,272...51,288,826 		JBrowse link
G DPYD dihydropyrimidine dehydrogenase involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chr20:35,376,738...36,215,388
Ensembl chr20:35,377,266...36,215,679 		JBrowse link
G DPYS dihydropyrimidinase involved_in ISO PMID:8307005 UniProt PMID:8307005 RGD:1624990 NCBI chr 8:99,216,623...99,303,969
Ensembl chr 8:99,216,354...99,303,282 		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 chr24:51,273,257...51,296,661
Ensembl chr24:51,269,272...51,288,826 		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 chr20:35,376,738...36,215,388
Ensembl chr20:35,377,266...36,215,679 		JBrowse link
G DPYS dihydropyrimidinase involved_in IEA Ensembl GO_REF:0000107 NCBI chr 8:99,216,623...99,303,969
Ensembl chr 8:99,216,354...99,303,282 		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 chr20:35,376,738...36,215,388
Ensembl chr20:35,377,266...36,215,679 		JBrowse link
G DPYS dihydropyrimidinase ISO RGD PMID:7626590 PMID:8307005 RGD:1624989 RGD:1624990 NCBI chr 8:99,216,623...99,303,969
Ensembl chr 8:99,216,354...99,303,282 		JBrowse link
G TYMS thymidylate synthetase ISO RGD PMID:2043679 RGD:5133426 NCBI chr18:60,030,640...60,043,297
Ensembl chr18:60,030,658...60,041,856 		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 chr 2:19,167,209...19,200,233 JBrowse link
xanthine catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC103224536 uricase involved_in IEA Ensembl GO_REF:0000107 NCBI chr20:48,956,328...48,989,641 JBrowse link
G URAD ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5-) decarboxylase involved_in ISO (PMID:16462750) MGI PMID:16462750 NCBI chr 3:7,092,926...7,109,949 JBrowse link
G XDH xanthine dehydrogenase involved_in IEA Ensembl GO_REF:0000107 NCBI chr14:76,084,693...76,162,840
Ensembl chr14:76,085,368...76,163,936 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19822
    cellular process 19340
      metabolic process 13127
        small molecule metabolic process 1720
          nucleobase-containing small molecule metabolic process 647
            nucleobase metabolic process 41
              nucleobase biosynthetic process + 20
              nucleobase catabolic process + 7
              purine nucleobase metabolic process + 25
              pyrimidine nucleobase metabolic process + 17
Path 2
Term Annotations click to browse term
  biological_process 19822
    cellular process 19340
      metabolic process 13127
        primary metabolic process 11556
          nucleobase-containing compound metabolic process 7369
            nucleobase-containing small molecule metabolic process 647
              nucleobase metabolic process 41
                nucleobase biosynthetic process + 20
                nucleobase catabolic process + 7
                purine nucleobase metabolic process + 25
                pyrimidine nucleobase metabolic process + 17
paths to the root