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ONTOLOGY REPORT - ANNOTATIONS


Term:pyrimidine deoxyribonucleotide metabolic process
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Accession:GO:0009219 term browser browse the term
Definition:The chemical reactions and pathways involving a pyrimidine deoxynucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
Synonyms:exact_synonym: pyrimidine deoxyribonucleotide metabolism



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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 ISO RGD PMID:192455 RGD:5133256 NCBI chr 1:47,333,790...47,378,839
Ensembl chr 1:47,333,790...47,378,839
JBrowse link
dCMP 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
Ensembl
GO_REF:0000107 NCBI chr 1:97,077,743...97,921,059
Ensembl chr 1:97,077,743...97,995,000
JBrowse link
G DPYS dihydropyrimidinase involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr 8:104,379,429...104,467,074
Ensembl chr 8:104,330,324...104,467,055
JBrowse link
G NT5C 5', 3'-nucleotidase, cytosolic involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr17:75,130,228...75,131,965
Ensembl chr17:75,130,225...75,131,757
JBrowse link
G UPB1 beta-ureidopropionase 1 involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr22:24,495,060...24,528,681
Ensembl chr22:24,494,107...24,528,390
JBrowse link
G UPP1 uridine phosphorylase 1 involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr 7:48,088,308...48,108,736
Ensembl chr 7:48,088,628...48,108,736
JBrowse link
G UPP2 uridine phosphorylase 2 involved_in IDA (PMID:12849978) MGI
MGI
PMID:12849978 NCBI chr 2:157,995,179...158,136,154
Ensembl chr 2:157,876,702...158,136,154
JBrowse link
dCTP catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DCTPP1 dCTP pyrophosphatase 1 involved_in IBA
IMP
(PMID:21873635)
(PMID:24467396)
GO_Central
UniProt
GO_Central
UniProt
PMID:21873635 PMID:24467396 NCBI chr16:30,423,615...30,430,030
Ensembl chr16:30,423,615...30,430,030
JBrowse link
depyrimidination term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G MBD4 methyl-CpG binding domain 4, DNA glycosylase involved_in TAS Reactome
Reactome
Reactome:R-HSA-110329 NCBI chr 3:129,430,947...129,440,029
Ensembl chr 3:129,430,947...129,440,179
JBrowse link
G NEIL1 nei like DNA glycosylase 1 involved_in TAS Reactome
Reactome
Reactome:R-HSA-110329 NCBI chr15:75,347,039...75,357,115
Ensembl chr15:75,346,955...75,357,115
JBrowse link
G NEIL2 nei like DNA glycosylase 2 involved_in TAS Reactome
Reactome
Reactome:R-HSA-110329 NCBI chr 8:11,769,710...11,787,345
Ensembl chr 8:11,769,639...11,787,345
JBrowse link
G NTHL1 nth like DNA glycosylase 1 involved_in TAS Reactome
Reactome
Reactome:R-HSA-110329 NCBI chr16:2,039,820...2,047,834
Ensembl chr16:2,039,815...2,047,866
JBrowse link
G OGG1 8-oxoguanine DNA glycosylase involved_in TAS Reactome
Reactome
Reactome:R-HSA-110329 NCBI chr 3:9,749,952...9,788,246
Ensembl chr 3:9,749,944...9,788,219
JBrowse link
G SMUG1 single-strand-selective monofunctional uracil-DNA glycosylase 1 involved_in TAS Reactome
Reactome
Reactome:R-HSA-110329 NCBI chr12:54,121,274...54,188,985
Ensembl chr12:54,121,277...54,189,008
JBrowse link
G TDG thymine DNA glycosylase involved_in TAS Reactome
Reactome
Reactome:R-HSA-110329 NCBI chr12:103,965,842...103,988,874
Ensembl chr12:103,965,822...103,988,874
JBrowse link
G UNG uracil DNA glycosylase involved_in TAS Reactome
Reactome
Reactome:R-HSA-110329 NCBI chr12:109,097,597...109,110,992
Ensembl chr12:109,097,597...109,110,992
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 IBA
IEA
ISO
(PMID:21873635) GO_Central
GO_Central
Ensembl
RGD
PMID:192455 PMID:21873635 GO_REF:0000107 RGD:5133256 NCBI chr 2:6,840,417...6,866,635
Ensembl chr 2:6,840,570...6,866,635
JBrowse link
G DTYMK deoxythymidylate kinase involved_in
acts_upstream_of_or_within
IEA
IBA
ISO
(PMID:21873635)
(MGI:77260|PMID:8845311)
InterPro
GO_Central
InterPro
Ensembl
MGI
RGD
GO_Central
PMID:220041 PMID:8845311 PMID:21873635 GO_REF:0000002 GO_REF:0000107 MGI:77260 RGD:5133687 NCBI chr 2:241,675,747...241,686,815
Ensembl chr 2:241,675,747...241,686,944
JBrowse link
dTMP biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DCTD dCMP deaminase involved_in IBA (PMID:21873635) GO_Central
GO_Central
PMID:21873635 NCBI chr 4:182,890,091...182,917,611
Ensembl chr 4:182,890,060...182,917,936
JBrowse link
G DUT deoxyuridine triphosphatase involved_in IDA (PMID:10952785), (PMID:15322254) MGI
MGI
PMID:10952785 PMID:15322254 NCBI chr15:48,331,095...48,343,373
Ensembl chr15:48,331,011...48,343,373
JBrowse link
G SHMT1 serine hydroxymethyltransferase 1 involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr17:18,327,873...18,363,560
Ensembl chr17:18,327,860...18,363,563
JBrowse link
G TYMS thymidylate synthetase involved_in IDA
IEA
IBA
ISO
(PMID:11278511), (PMID:15093541), (PMID:8845352)
(PMID:21873635)
CAFA
InterPro
GO_Central
Ensembl
CAFA
GO_Central
RGD
PMID:8845352 PMID:9894005 PMID:11278511 PMID:15093541 PMID:21873635 GO_REF:0000002 GO_REF:0000107 RGD:1545055 NCBI chr18:657,653...673,578
Ensembl chr18:657,653...673,578
JBrowse link
dTMP catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G NT5C 5', 3'-nucleotidase, cytosolic involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr17:75,130,228...75,131,965
Ensembl chr17:75,130,225...75,131,757
JBrowse link
G TYMP thymidine phosphorylase involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr22:50,525,752...50,530,085
Ensembl chr22:50,525,752...50,530,032
JBrowse link
G UPP1 uridine phosphorylase 1 involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr 7:48,088,308...48,108,736
Ensembl chr 7:48,088,628...48,108,736
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 (PMID:21873635) GO_Central
GO_Central
PMID:21873635 NCBI chr 2:6,840,417...6,866,635
Ensembl chr 2:6,840,570...6,866,635
JBrowse link
G DTYMK deoxythymidylate kinase involved_in IBA
IEA
ISO
(PMID:21873635) GO_Central
GO_Central
UniProt
RGD
UniProt
PMID:220041 PMID:21873635 GO_REF:0000041 RGD:5133687 NCBI chr 2:241,675,747...241,686,815
Ensembl chr 2:241,675,747...241,686,944
JBrowse link
G TBPL1 TATA-box binding protein like 1 involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:2159505|PMID:11861477) Ensembl
Ensembl
MGI
PMID:11861477 GO_REF:0000107 MGI:2159505 NCBI chr 6:133,952,174...133,990,432
Ensembl chr 6:133,952,170...133,990,432
JBrowse link
G TYMS thymidylate synthetase involved_in IEA UniProt
UniProt
GO_REF:0000041 NCBI chr18:657,653...673,578
Ensembl chr18:657,653...673,578
JBrowse link
dTTP catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DCTPP1 dCTP pyrophosphatase 1 NOT|involved_in IMP (PMID:24467396) UniProt
UniProt
PMID:24467396 NCBI chr16:30,423,615...30,430,030
Ensembl chr16:30,423,615...30,430,030
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 ISO RGD PMID:3010881 RGD:5133253 NCBI chr 1:47,333,790...47,378,839
Ensembl chr 1:47,333,790...47,378,839
JBrowse link
G CMPK2 cytidine/uridine monophosphate kinase 2 involved_in IBA
IEA
ISO
(PMID:21873635) GO_Central
Ensembl
GO_Central
RGD
PMID:192455 PMID:21873635 GO_REF:0000107 RGD:5133256 NCBI chr 2:6,840,417...6,866,635
Ensembl chr 2:6,840,570...6,866,635
JBrowse link
G DTYMK deoxythymidylate kinase involved_in IBA (PMID:21873635) GO_Central
GO_Central
PMID:21873635 NCBI chr 2:241,675,747...241,686,815
Ensembl chr 2:241,675,747...241,686,944
JBrowse link
dUMP biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G AL353753.1 putative deoxyuridine 5'-triphosphate nucleotidohydrolase-like protein FLJ16323 involved_in IBA
IEA
(PMID:21873635) GO_Central
GO_Central
InterPro
PMID:21873635 GO_REF:0000002 NCBI chr 9:26,066,675...26,118,408
Ensembl chr 9:26,066,675...26,118,408
JBrowse link
G DCTD dCMP deaminase involved_in IBA (PMID:21873635) GO_Central
GO_Central
PMID:21873635 NCBI chr 4:182,890,091...182,917,611
Ensembl chr 4:182,890,060...182,917,936
JBrowse link
G DUT deoxyuridine triphosphatase involved_in IBA
IEA
ISO
(PMID:21873635) GO_Central
UniProt
InterPro
GO_Central
RGD
UniProt
PMID:1315924 PMID:3032103 PMID:21873635 GO_REF:0000002 GO_REF:0000041 GO_REF:0000104 RGD:2300191 RGD:2301218 NCBI chr15:48,331,095...48,343,373
Ensembl chr15:48,331,011...48,343,373
JBrowse link
dUMP 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
Ensembl
GO_REF:0000107 NCBI chr 1:97,077,743...97,921,059
Ensembl chr 1:97,077,743...97,995,000
JBrowse link
G DPYS dihydropyrimidinase involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr 8:104,379,429...104,467,074
Ensembl chr 8:104,330,324...104,467,055
JBrowse link
G NT5C 5', 3'-nucleotidase, cytosolic involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr17:75,130,228...75,131,965
Ensembl chr17:75,130,225...75,131,757
JBrowse link
G NT5M 5',3'-nucleotidase, mitochondrial involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:2388903|PMID:12234672) Ensembl
Ensembl
MGI
PMID:12234672 GO_REF:0000107 MGI:2388903 NCBI chr17:17,303,373...17,347,663
Ensembl chr17:17,303,335...17,347,663
JBrowse link
G UPB1 beta-ureidopropionase 1 involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr22:24,495,060...24,528,681
Ensembl chr22:24,494,107...24,528,390
JBrowse link
G UPP1 uridine phosphorylase 1 involved_in IEA Ensembl
Ensembl
GO_REF:0000107 NCBI chr 7:48,088,308...48,108,736
Ensembl chr 7:48,088,628...48,108,736
JBrowse link
dUTP catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G AL353753.1 putative deoxyuridine 5'-triphosphate nucleotidohydrolase-like protein FLJ16323 involved_in IBA
IEA
(PMID:21873635) GO_Central
InterPro
GO_Central
PMID:21873635 GO_REF:0000002 NCBI chr 9:26,066,675...26,118,408
Ensembl chr 9:26,066,675...26,118,408
JBrowse link
G DUT deoxyuridine triphosphatase involved_in IEA
IBA
ISO
(PMID:21873635) UniProt
UniProt
InterPro
GO_Central
RGD
GO_Central
PMID:1315924 PMID:3032103 PMID:21873635 GO_REF:0000002 GO_REF:0000104 RGD:2300191 RGD:2301218 NCBI chr15:48,331,095...48,343,373
Ensembl chr15:48,331,011...48,343,373
JBrowse link
pyrimidine deoxyribonucleotide catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G NT5C 5', 3'-nucleotidase, cytosolic involved_in IBA
IDA
(PMID:21873635)
(PMID:10681516)
GO_Central
GO_Central
UniProt
UniProt
PMID:10681516 PMID:21873635 NCBI chr17:75,130,228...75,131,965
Ensembl chr17:75,130,225...75,131,757
JBrowse link
G NT5M 5',3'-nucleotidase, mitochondrial involved_in IBA
TAS
(PMID:21873635)
(PMID:10899995)
GO_Central
GO_Central
PINC
PMID:10899995 PMID:21873635 NCBI chr17:17,303,373...17,347,663
Ensembl chr17:17,303,335...17,347,663
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 18661
    metabolic process 12014
      organic substance metabolic process 11504
        organonitrogen compound metabolic process 6756
          pyrimidine-containing compound metabolic process 92
            pyrimidine nucleotide metabolic process 55
              pyrimidine deoxyribonucleotide metabolic process 26
                dCDP metabolic process + 1
                dCMP metabolic process + 6
                dCTP metabolic process + 1
                dTDP metabolic process + 2
                dTMP metabolic process + 7
                dTTP metabolic process + 5
                dUDP metabolic process + 3
                dUMP metabolic process + 9
                dUTP metabolic process + 2
                pyrimidine deoxyribonucleotide biosynthetic process + 9
                pyrimidine deoxyribonucleotide catabolic process + 19
                pyrimidine deoxyribonucleotide interconversion 0
Path 2
Term Annotations click to browse term
  biological_process 18661
    metabolic process 12014
      organic substance metabolic process 11504
        organic cyclic compound metabolic process 6376
          nucleobase-containing compound metabolic process 5880
            nucleobase-containing small molecule metabolic process 622
              nucleoside phosphate metabolic process 542
                nucleotide metabolic process 533
                  deoxyribonucleotide metabolic process 54
                    2'-deoxyribonucleotide metabolic process 52
                      pyrimidine deoxyribonucleotide metabolic process 26
                        dCDP metabolic process + 1
                        dCMP metabolic process + 6
                        dCTP metabolic process + 1
                        dTDP metabolic process + 2
                        dTMP metabolic process + 7
                        dTTP metabolic process + 5
                        dUDP metabolic process + 3
                        dUMP metabolic process + 9
                        dUTP metabolic process + 2
                        pyrimidine deoxyribonucleotide biosynthetic process + 9
                        pyrimidine deoxyribonucleotide catabolic process + 19
                        pyrimidine deoxyribonucleotide interconversion 0
paths to the root