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ONTOLOGY REPORT - ANNOTATIONS

Term:pyrimidine nucleotide biosynthetic process
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Accession:GO:0006221 term browser browse the term
Definition:The chemical reactions and pathways resulting in the formation of a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
Synonyms:exact_synonym: pyrimidine nucleotide anabolism;   pyrimidine nucleotide biosynthesis;   pyrimidine nucleotide formation;   pyrimidine nucleotide synthesis


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pyrimidine nucleotide biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cmpk1 cytidine/uridine monophosphate kinase 1 involved_in IEA GO_REF:0000104
GO_REF:0000043		 UniProt GO_REF:0000043 GO_REF:0000104 NCBI chr 5:128,480,301...128,507,830
Ensembl chr 5:128,480,301...128,507,830 		JBrowse link
G Slc4a7 solute carrier family 4 member 7 involved_in ISO (PMID:35772404) RGD PMID:35772404 NCBI chr15:10,585,307...10,664,780
Ensembl chr15:10,588,979...10,664,781 		JBrowse link
'de novo' CTP 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 GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr 5:134,125,022...134,154,155
Ensembl chr 5:134,125,025...134,154,180 		JBrowse link
G Ctps2 CTP synthase 2 involved_in IEA GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr  X:31,645,873...31,786,733
Ensembl chr  X:31,645,873...31,786,733 		JBrowse link
'de novo' UMP 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 IEA
ISO		 GO_REF:0000041
(PMID:33771897)
(PMID:25678555)		 UniProt
RGD		 PMID:25678555 PMID:33771897 GO_REF:0000041 NCBI chr 6:25,292,133...25,315,078
Ensembl chr 6:25,292,133...25,319,861 		JBrowse link
G Dhodh dihydroorotate dehydrogenase (quinone) involved_in IEA
ISO		 GO_REF:0000041
(PMID:30449682), (PMID:6249586)		 UniProt
RGD		 PMID:6249586 PMID:30449682 GO_REF:0000041 NCBI chr19:37,551,858...37,573,327
Ensembl chr19:37,558,177...37,591,654 		JBrowse link
G Umps uridine monophosphate synthetase involved_in IEA
ISO		 GO_REF:0000041
(PMID:2419341), (PMID:6154574)		 UniProt
RGD		 PMID:2419341 PMID:6154574 GO_REF:0000041 NCBI chr11:66,806,107...66,816,520
Ensembl chr11:66,806,045...66,821,903 		JBrowse link
CDP biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cmpk1 cytidine/uridine monophosphate kinase 1 involved_in IDA
IBA		 GO_REF:0000033 GO_Central
RGD		 PMID:3010881 GO_REF:0000033, RGD:5133253 NCBI chr 5:128,480,301...128,507,830
Ensembl chr 5:128,480,301...128,507,830 		JBrowse link
CMP biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dck deoxycytidine kinase involved_in IEA GO_REF:0000108 GOC GO_REF:0000108 NCBI chr14:19,305,218...19,326,247
Ensembl chr14:19,305,218...19,326,247 		JBrowse link
G Uck1 uridine-cytidine kinase 1 involved_in IEA GO_REF:0000108 GOC GO_REF:0000108 NCBI chr 3:15,538,580...15,544,465
Ensembl chr 3:15,538,591...15,544,465 		JBrowse link
G Uck2 uridine-cytidine kinase 2 involved_in IEA GO_REF:0000108 GOC GO_REF:0000108 NCBI chr13:79,380,807...79,438,121
Ensembl chr13:79,383,846...79,438,352 		JBrowse link
CTP 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 ISO
IBA		 (PMID:16179339), (PMID:24870241)
GO_REF:0000033		 RGD
GO_Central		 PMID:16179339 PMID:24870241 GO_REF:0000033 NCBI chr 5:134,125,022...134,154,155
Ensembl chr 5:134,125,025...134,154,180 		JBrowse link
G Ctps2 CTP synthase 2 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr  X:31,645,873...31,786,733
Ensembl chr  X:31,645,873...31,786,733 		JBrowse link
G Decr2 2,4-dienoyl-CoA reductase 2 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr10:15,104,907...15,113,281
Ensembl chr10:15,002,926...15,118,479 		JBrowse link
G ENSRNOG00000062879 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 Ensembl chr  X:36,618,074...36,618,881 JBrowse link
G Nme1 NME/NM23 nucleoside diphosphate kinase 1 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr10:78,907,036...78,929,659
Ensembl chr10:78,906,083...78,916,408 		JBrowse link
G Nme2 NME/NM23 nucleoside diphosphate kinase 2 involved_in IDA
IEA		 GO_REF:0000002 InterPro
RGD		 PMID:1316151 GO_REF:0000002, RGD:729254 NCBI chr10:78,898,097...78,903,514
Ensembl chr10:78,897,770...78,903,538 		JBrowse link
G Nme3 NME/NM23 nucleoside diphosphate kinase 3 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr10:13,917,309...13,918,415
Ensembl chr10:13,917,403...13,918,359 		JBrowse link
G Nme4 NME/NM23 nucleoside diphosphate kinase 4 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr10:15,114,624...15,118,479
Ensembl chr10:15,002,926...15,118,479 		JBrowse link
G Nme5 NME/NM23 family member 5 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr18:26,163,558...26,180,742
Ensembl chr18:26,163,555...26,180,794 		JBrowse link
G Nme6 NME/NM23 nucleoside diphosphate kinase 6 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 8:109,832,085...109,839,301
Ensembl chr 8:109,832,589...109,839,301 		JBrowse link
G Nme7 NME/NM23 family member 7 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr13:76,657,303...76,786,768
Ensembl chr13:76,657,367...76,786,765 		JBrowse link
G Rab11fip3 RAB11 family interacting protein 3 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr10:15,002,650...15,086,382
Ensembl chr10:15,002,926...15,118,479 		JBrowse link
CTP salvage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Uck1 uridine-cytidine kinase 1 involved_in ISO
IEA		 (PMID:11306702)
GO_REF:0000041		 RGD
UniProt		 PMID:11306702 GO_REF:0000041 NCBI chr 3:15,538,580...15,544,465
Ensembl chr 3:15,538,591...15,544,465 		JBrowse link
G Uck2 uridine-cytidine kinase 2 involved_in IEA
ISS
ISO		 GO_REF:0000041
GO_REF:0000024
(PMID:11306702)		 UniProt
RGD		 PMID:11306702 GO_REF:0000024 GO_REF:0000041 NCBI chr13:79,380,807...79,438,121
Ensembl chr13:79,383,846...79,438,352 		JBrowse link
G Uckl1 uridine-cytidine kinase 1-like 1 involved_in IEA GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr 3:168,674,849...168,687,513
Ensembl chr 3:168,674,849...168,698,091 		JBrowse link
dCDP biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cmpk1 cytidine/uridine monophosphate kinase 1 IDA RGD PMID:192455 RGD:5133256 NCBI chr 5:128,480,301...128,507,830
Ensembl chr 5:128,480,301...128,507,830 		JBrowse link
dTDP biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cmpk2 cytidine/uridine monophosphate kinase 2 involved_in IDA
IBA		 GO_REF:0000033 GO_Central
RGD		 PMID:192455 GO_REF:0000033, RGD:5133256 NCBI chr 6:43,073,706...43,085,183
Ensembl chr 6:43,073,796...43,085,183 		JBrowse link
G Dtymk deoxythymidylate kinase acts_upstream_of_or_within
involved_in		 IDA
ISO
IBA		 (PMID:8845311)
GO_REF:0000033
(PMID:12614151)		 RGD
GO_Central		 PMID:8845311 PMID:12614151 PMID:220041 GO_REF:0000033, RGD:5133687 NCBI chr 9:94,315,552...94,324,386
Ensembl chr 9:94,315,552...94,324,870 		JBrowse link
dTMP biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dut deoxyuridine triphosphatase involved_in ISO (PMID:10952785), (PMID:15322254) RGD PMID:10952785 PMID:15322254 NCBI chr 3:112,498,864...112,509,994
Ensembl chr 3:112,498,982...112,510,771 		JBrowse link
G Shmt1 serine hydroxymethyltransferase 1 involved_in ISO (MGI:3849912|PMID:19513116) RGD PMID:19513116 MGI:3849912 NCBI chr10:45,468,698...45,490,833
Ensembl chr10:45,468,700...45,497,820 		JBrowse link
G Tyms thymidylate synthetase involved_in IDA
ISO
IBA
IEA		 (PMID:22057276)
GO_REF:0000033
GO_REF:0000002
(PMID:11278511), (PMID:15093541), (PMID:8845352)		 RGD
GO_Central
InterPro		 PMID:8845352 PMID:11278511 PMID:15093541 PMID:22057276 PMID:9894005 GO_REF:0000002 GO_REF:0000033, RGD:1545055 NCBI chr 9:113,313,454...113,329,551
Ensembl chr 9:113,313,452...113,329,536 		JBrowse link
dTTP biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cmpk2 cytidine/uridine monophosphate kinase 2 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 6:43,073,706...43,085,183
Ensembl chr 6:43,073,796...43,085,183 		JBrowse link
G Dtymk deoxythymidylate kinase involved_in IDA
IBA		 GO_REF:0000033 GO_Central
RGD		 PMID:220041 GO_REF:0000033, RGD:5133687 NCBI chr 9:94,315,552...94,324,386
Ensembl chr 9:94,315,552...94,324,870 		JBrowse link
G Tbpl1 TATA-box binding protein like 1 acts_upstream_of_or_within ISO MGI:2182539 (PMID:11861477) RGD PMID:11861477 NCBI chr 1:22,777,892...22,803,305
Ensembl chr 1:22,778,459...22,803,122
Ensembl chr 1:22,778,459...22,803,122 		JBrowse link
G Tyms thymidylate synthetase involved_in IEA GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr 9:113,313,454...113,329,551
Ensembl chr 9:113,313,452...113,329,536 		JBrowse link
dUDP biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cmpk1 cytidine/uridine monophosphate kinase 1 IDA RGD PMID:3010881 RGD:5133253 NCBI chr 5:128,480,301...128,507,830
Ensembl chr 5:128,480,301...128,507,830 		JBrowse link
G Cmpk2 cytidine/uridine monophosphate kinase 2 involved_in IDA
IBA		 GO_REF:0000033 GO_Central
RGD		 PMID:192455 GO_REF:0000033, RGD:5133256 NCBI chr 6:43,073,706...43,085,183
Ensembl chr 6:43,073,796...43,085,183 		JBrowse link
G Dtymk deoxythymidylate kinase involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 9:94,315,552...94,324,386
Ensembl chr 9:94,315,552...94,324,870 		JBrowse link
dUMP biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G AABR07001512.1 involved_in IEA
IBA		 GO_REF:0000041
GO_REF:0000033		 UniProt
GO_Central		 GO_REF:0000033 GO_REF:0000041 Ensembl chr 1:48,369,044...48,369,595 JBrowse link
G Dut deoxyuridine triphosphatase involved_in IDA
IBA
IEA		 GO_REF:0000033
GO_REF:0000041		 GO_Central
UniProt
RGD		 PMID:3032103 PMID:1315924 GO_REF:0000033 GO_REF:0000041, RGD:2300191, RGD:2301218 NCBI chr 3:112,498,864...112,509,994
Ensembl chr 3:112,498,982...112,510,771 		JBrowse link
G ENSRNOG00000069939 involved_in IEA GO_REF:0000041 UniProt GO_REF:0000041 Ensembl chr13:67,763,505...67,765,634 JBrowse link
pyrimidine ribonucleotide biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dhodh dihydroorotate dehydrogenase (quinone) involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr19:37,551,858...37,573,327
Ensembl chr19:37,558,177...37,591,654 		JBrowse link
UDP 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 (PMID:25678555) RGD PMID:25678555 NCBI chr 6:25,292,133...25,315,078
Ensembl chr 6:25,292,133...25,319,861 		JBrowse link
G Cmpk1 cytidine/uridine monophosphate kinase 1 involved_in IDA
IBA
IEA
ISO		 GO_REF:0000033
GO_REF:0000107
(PMID:11912132)		 GO_Central
Ensembl
RGD		 PMID:11912132 PMID:3010881 GO_REF:0000033 GO_REF:0000107, RGD:5133253 NCBI chr 5:128,480,301...128,507,830
Ensembl chr 5:128,480,301...128,507,830 		JBrowse link
G Dhodh dihydroorotate dehydrogenase (quinone) involved_in IEA
ISO		 GO_REF:0000107
(PMID:30449682), (PMID:6249586)		 Ensembl
RGD		 PMID:6249586 PMID:30449682 GO_REF:0000107 NCBI chr19:37,551,858...37,573,327
Ensembl chr19:37,558,177...37,591,654 		JBrowse link
G Umps uridine monophosphate synthetase involved_in ISO (PMID:2419341), (PMID:6154574) RGD PMID:2419341 PMID:6154574 NCBI chr11:66,806,107...66,816,520
Ensembl chr11:66,806,045...66,821,903 		JBrowse link
UMP biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Uck1 uridine-cytidine kinase 1 acts_upstream_of_or_within ISO (MGI:84399|PMID:8951040) RGD PMID:8951040 MGI:84399 NCBI chr 3:15,538,580...15,544,465
Ensembl chr 3:15,538,591...15,544,465 		JBrowse link
G Umps uridine monophosphate synthetase involved_in IDA
IBA
ISO		 GO_REF:0000033
(PMID:11730338), (PMID:18184586), (PMID:6893554), (PMID:9042911)		 GO_Central
RGD		 PMID:6893554 PMID:9042911 PMID:11730338 PMID:18184586 PMID:6134725 GO_REF:0000033, RGD:5132277 NCBI chr11:66,806,107...66,816,520
Ensembl chr11:66,806,045...66,821,903 		JBrowse link
G Uprt uracil phosphoribosyltransferase homolog IDA RGD PMID:1476792 RGD:5132591 NCBI chr  X:69,516,573...69,546,811
Ensembl chr  X:69,516,738...69,546,797 		JBrowse link
UMP salvage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cda cytidine deaminase involved_in ISO (PMID:6498945) RGD PMID:6498945 NCBI chr 5:150,556,615...150,583,231
Ensembl chr 5:150,556,615...150,583,231 		JBrowse link
G Uck1 uridine-cytidine kinase 1 involved_in IEA
ISO		 GO_REF:0000041
(PMID:8951040)
(PMID:11306702)		 UniProt
RGD		 PMID:8951040 PMID:11306702 GO_REF:0000041 NCBI chr 3:15,538,580...15,544,465
Ensembl chr 3:15,538,591...15,544,465 		JBrowse link
G Uck2 uridine-cytidine kinase 2 involved_in IEA
ISO
ISS		 GO_REF:0000041
(PMID:11306702), (PMID:27239701)
GO_REF:0000024		 UniProt
RGD		 PMID:11306702 PMID:27239701 GO_REF:0000024 GO_REF:0000041 NCBI chr13:79,380,807...79,438,121
Ensembl chr13:79,383,846...79,438,352 		JBrowse link
G Uckl1 uridine-cytidine kinase 1-like 1 involved_in IEA GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr 3:168,674,849...168,687,513
Ensembl chr 3:168,674,849...168,698,091 		JBrowse link
G Upp1 uridine phosphorylase 1 involved_in IEA
ISO		 GO_REF:0000041
(PMID:11956089)		 UniProt
RGD		 PMID:11956089 GO_REF:0000041 NCBI chr14:83,809,495...83,829,299
Ensembl chr14:83,809,960...83,829,462 		JBrowse link
G Upp2 uridine phosphorylase 2 involved_in IEA GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr 3:43,273,048...43,317,417
Ensembl chr 3:43,273,048...43,317,417 		JBrowse link
UTP 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 IDA
IBA		 GO_REF:0000033 GO_Central
RGD		 PMID:10659854 GO_REF:0000033, RGD:2303528 NCBI chr 6:25,292,133...25,315,078
Ensembl chr 6:25,292,133...25,319,861 		JBrowse link
G Decr2 2,4-dienoyl-CoA reductase 2 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr10:15,104,907...15,113,281
Ensembl chr10:15,002,926...15,118,479 		JBrowse link
G ENSRNOG00000062879 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 Ensembl chr  X:36,618,074...36,618,881 JBrowse link
G Nme1 NME/NM23 nucleoside diphosphate kinase 1 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr10:78,907,036...78,929,659
Ensembl chr10:78,906,083...78,916,408 		JBrowse link
G Nme2 NME/NM23 nucleoside diphosphate kinase 2 involved_in IDA
IEA		 GO_REF:0000002 InterPro
RGD		 PMID:1316151 GO_REF:0000002, RGD:729254 NCBI chr10:78,898,097...78,903,514
Ensembl chr10:78,897,770...78,903,538 		JBrowse link
G Nme3 NME/NM23 nucleoside diphosphate kinase 3 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr10:13,917,309...13,918,415
Ensembl chr10:13,917,403...13,918,359 		JBrowse link
G Nme4 NME/NM23 nucleoside diphosphate kinase 4 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr10:15,114,624...15,118,479
Ensembl chr10:15,002,926...15,118,479 		JBrowse link
G Nme5 NME/NM23 family member 5 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr18:26,163,558...26,180,742
Ensembl chr18:26,163,555...26,180,794 		JBrowse link
G Nme6 NME/NM23 nucleoside diphosphate kinase 6 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 8:109,832,085...109,839,301
Ensembl chr 8:109,832,589...109,839,301 		JBrowse link
G Nme7 NME/NM23 family member 7 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr13:76,657,303...76,786,768
Ensembl chr13:76,657,367...76,786,765 		JBrowse link
G Rab11fip3 RAB11 family interacting protein 3 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr10:15,002,650...15,086,382
Ensembl chr10:15,002,926...15,118,479 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19870
    metabolic process 11602
      biosynthetic process 8279
        organonitrogen compound biosynthetic process 2114
          pyrimidine-containing compound biosynthetic process 41
            pyrimidine nucleotide biosynthetic process 33
              negative regulation of pyrimidine nucleotide biosynthetic process + 0
              positive regulation of pyrimidine nucleotide biosynthetic process 0
              pyrimidine deoxyribonucleotide biosynthetic process + 9
              pyrimidine nucleotide salvage + 6
              pyrimidine ribonucleotide biosynthetic process + 24
              regulation of pyrimidine nucleotide biosynthetic process + 0
Path 2
Term Annotations click to browse term
  biological_process 19870
    metabolic process 11602
      cellular metabolic process 9670
        phosphorus metabolic process 1887
          phosphate-containing compound metabolic process 1855
            nucleoside phosphate metabolic process 620
              nucleotide metabolic process 610
                pyrimidine nucleotide metabolic process 47
                  pyrimidine nucleotide biosynthetic process 33
                    negative regulation of pyrimidine nucleotide biosynthetic process + 0
                    positive regulation of pyrimidine nucleotide biosynthetic process 0
                    pyrimidine deoxyribonucleotide biosynthetic process + 9
                    pyrimidine nucleotide salvage + 6
                    pyrimidine ribonucleotide biosynthetic process + 24
                    regulation of pyrimidine nucleotide biosynthetic process + 0
paths to the root