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ONTOLOGY REPORT - ANNOTATIONS


Term:pyrimidine nucleobase metabolic process
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Accession:GO:0006206 term browser browse the term
Definition:The chemical reactions and pathways involving pyrimidine nucleobases, 1,3-diazine, organic nitrogenous bases.
Synonyms:exact_synonym: pyrimidine base metabolic process;   pyrimidine base metabolism
 related_synonym: pyrimidine metabolic process;   pyrimidine metabolism


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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 IEP orotic acid RGD PMID:10204803 RGD:5133695 NCBI chr 1:167,538,387...167,562,688
Ensembl chr 1:167,538,263...167,562,688
JBrowse link
G Rrm2 ribonucleotide reductase regulatory subunit M2 IEP orotic acid RGD PMID:10204803 RGD:5133695 NCBI chr 6:43,884,627...43,890,818
Ensembl chr 6:43,884,678...43,889,515
JBrowse link
G Tymp thymidine phosphorylase IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 7:130,342,481...130,347,845
Ensembl chr 7:130,342,483...130,347,587
JBrowse link
G Tyms thymidylate synthetase IEP 5-fluorocytosine RGD PMID:9524100 RGD:5133447 NCBI chr 9:121,918,875...121,931,564
Ensembl chr 9:121,918,947...121,931,564
JBrowse link
'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 IDA
IBA
ISO
PMID:21873635
(PMID:24332717)
RGD PMID:24332717, PMID:1476792, PMID:21873635 RGD:5132591, RGD:13792537 NCBI chr 6:26,657,507...26,680,459
Ensembl chr 6:26,657,780...26,680,284
JBrowse link
G Cmpk1 cytidine/uridine monophosphate kinase 1 IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 5:133,759,722...133,786,452
Ensembl chr 5:133,759,735...133,786,452
JBrowse link
G Cps1 carbamoyl-phosphate synthase 1 IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 9:74,113,437...74,236,274
Ensembl chr 9:74,124,016...74,236,274
JBrowse link
G Dhodh dihydroorotate dehydrogenase (quinone) IDA
IBA
PMID:21873635 RGD
GO_Central
PMID:1476792, PMID:21873635 RGD:5132591, RGD:13792537 NCBI chr19:42,066,103...42,087,906
Ensembl chr19:42,066,351...42,082,012
JBrowse link
G Mtor mechanistic target of rapamycin kinase ISO (MGI:MGI:5469988|PMID:23429704) RGD PMID:23429704 MGI:MGI:5469988 NCBI chr 5:165,263,813...165,373,967
Ensembl chr 5:165,263,800...165,373,967
JBrowse link
G Umps uridine monophosphate synthetase IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr11:70,034,181...70,044,590
Ensembl chr11:70,034,139...70,044,628
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 ISO (MGI:MGI:3510481|PMID:15284227) RGD PMID:15284227 MGI:MGI:3510481 NCBI chr11:88,203,863...88,273,301
Ensembl chr11:88,211,599...88,273,254
JBrowse link
G Tet2 tet methylcytosine dioxygenase 2 ISO MGI:MGI:5301343 (MGI:MGI:5298314|PMID:21803851) RGD PMID:21803851 MGI:MGI:5298314 NCBI chr 2:238,719,389...238,802,975
Ensembl chr 2:238,720,835...238,803,024
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 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 5:139,475,934...139,505,065
Ensembl chr 5:139,475,934...139,505,065
JBrowse link
G Ctps2 CTP synthase 2 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr  X:33,383,087...33,522,852
Ensembl chr  X:33,383,087...33,522,836
JBrowse link
G Umps uridine monophosphate synthetase IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr11:70,034,181...70,044,590
Ensembl chr11:70,034,139...70,044,628
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 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr14:78,266,931...78,312,777
Ensembl chr14:78,266,931...78,308,933
JBrowse link
G Dpyd dihydropyrimidine dehydrogenase IDA
ISO
(PMID:11988088)
(MGI:MGI:2657070|PMID:12651209)
RGD PMID:11988088, PMID:12651209, PMID:1629785 MGI:MGI:2657070, RGD:1599794 NCBI chr 2:221,823,692...222,694,627
Ensembl chr 2:221,823,687...222,694,627
JBrowse link
G Dpys dihydropyrimidinase ISO
IBA
(PMID:9718352)
PMID:21873635
RGD PMID:9718352, PMID:21873635 RGD:13792537 NCBI chr 7:78,769,918...78,847,941
Ensembl chr 7:78,769,807...78,847,974
JBrowse link
G Dpysl2 dihydropyrimidinase-like 2 NOT IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr15:43,475,640...43,581,725
Ensembl chr15:43,477,629...43,542,939
JBrowse link
G Dpysl3 dihydropyrimidinase-like 3 NOT IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr18:37,716,371...37,819,347
Ensembl chr18:37,716,143...37,819,097
JBrowse link
G Dpysl4 dihydropyrimidinase-like 4 NOT IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 1:211,423,022...211,438,533
Ensembl chr 1:211,423,022...211,438,531
JBrowse link
G Dpysl5 dihydropyrimidinase-like 5 NOT IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 6:26,939,696...27,024,129
Ensembl chr 6:26,939,697...27,024,129
JBrowse link
G LOC103692570 dihydropyrimidinase-related protein 5-like NOT IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 6:26,423,841...26,446,080
Ensembl chr 6:26,426,869...26,445,787
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 IDA
IBA
IEA
ISO
PMID:21873635
GO_REF:0000107
(PMID:23835272)
Ensembl
RGD
PMID:23835272, PMID:2768248, PMID:21873635 GO_REF:0000107, RGD:1599052, RGD:13792537 NCBI chr 6:108,146,552...108,167,185
Ensembl chr 6:108,146,582...108,167,185
JBrowse link
G Dpyd dihydropyrimidine dehydrogenase ISO
IBA
IEA
(PMID:10410956)
PMID:21873635
GO_REF:0000107
RGD
Ensembl
PMID:10410956, PMID:21873635 GO_REF:0000107, RGD:13792537 NCBI chr 2:221,823,692...222,694,627
Ensembl chr 2:221,823,687...222,694,627
JBrowse link
G Dpys dihydropyrimidinase IDA PMID:8307005 UniProt PMID:8307005 RGD:1624990 NCBI chr 7:78,769,918...78,847,941
Ensembl chr 7:78,769,807...78,847,974
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 IDA PMID:2768248 UniProt PMID:2768248 RGD:1599052 NCBI chr 6:108,146,552...108,167,185
Ensembl chr 6:108,146,582...108,167,185
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 ISS
IBA
IEA
ISO
GO_REF:0000024
PMID:21873635
GO_REF:0000107
(PMID:1512248), (PMID:18075467)
UniProt
Ensembl
RGD
PMID:1512248, PMID:18075467, PMID:21873635 GO_REF:0000024, GO_REF:0000107, RGD:13792537 NCBI chr 2:221,823,692...222,694,627
Ensembl chr 2:221,823,687...222,694,627
JBrowse link
G Dpys dihydropyrimidinase IDA
ISO
PMID:8307005
(PMID:10410956), (PMID:18075467)
RGD PMID:10410956, PMID:18075467, PMID:8307005 RGD:1624990 NCBI chr 7:78,769,918...78,847,941
Ensembl chr 7:78,769,807...78,847,974
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 IDA RGD PMID:7626590 RGD:1624989 NCBI chr 2:221,823,692...222,694,627
Ensembl chr 2:221,823,687...222,694,627
JBrowse link
G Dpys dihydropyrimidinase IDA RGD PMID:7626590, PMID:8307005 RGD:1624989, RGD:1624990 NCBI chr 7:78,769,918...78,847,941
Ensembl chr 7:78,769,807...78,847,974
JBrowse link
G Tyms thymidylate synthetase IEP RGD PMID:2043679 RGD:5133426 NCBI chr 9:121,918,875...121,931,564
Ensembl chr 9:121,918,947...121,931,564
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20014
    metabolic process 12256
      small molecule metabolic process 1870
        nucleobase-containing small molecule metabolic process 590
          nucleobase metabolic process 49
            pyrimidine nucleobase metabolic process 23
              cytosine metabolic process + 2
              negative regulation of pyrimidine nucleobase metabolic process 0
              positive regulation of pyrimidine nucleobase metabolic process 0
              pyrimidine nucleobase biosynthetic process + 8
              pyrimidine nucleobase catabolic process + 9
              regulation of pyrimidine nucleobase metabolic process + 0
              thymine metabolic process + 3
              uracil metabolic process + 3
Path 2
Term Annotations click to browse term
  biological_process 20014
    metabolic process 12256
      cellular metabolic process 11065
        cellular aromatic compound metabolic process 5708
          nucleobase-containing compound metabolic process 5483
            nucleobase-containing small molecule metabolic process 590
              nucleobase metabolic process 49
                pyrimidine nucleobase metabolic process 23
                  cytosine metabolic process + 2
                  negative regulation of pyrimidine nucleobase metabolic process 0
                  positive regulation of pyrimidine nucleobase metabolic process 0
                  pyrimidine nucleobase biosynthetic process + 8
                  pyrimidine nucleobase catabolic process + 9
                  regulation of pyrimidine nucleobase metabolic process + 0
                  thymine metabolic process + 3
                  uracil metabolic process + 3
paths to the root

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.