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ONTOLOGY REPORT - ANNOTATIONS


Term:isoprenoid biosynthetic process
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Accession:GO:0008299 term browser browse the term
Definition:The chemical reactions and pathways resulting in the formation of an isoprenoid compound, isoprene (2-methylbuta-1,3-diene) or compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues.
Synonyms:exact_synonym: isoprenoid anabolism;   isoprenoid biosynthesis;   isoprenoid formation;   isoprenoid synthesis
 narrow_synonym: polyisoprenoid anabolism;   polyisoprenoid biosynthesis;   polyisoprenoid biosynthetic process;   polyisoprenoid formation;   polyisoprenoid synthesis;   polyterpene biosynthesis;   polyterpene biosynthetic process
 alt_id: GO:0009241
 xref: MetaCyc:POLYISOPRENSYN-PWY



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isoprenoid biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Coq2 coenzyme Q2, polyprenyltransferase involved_in IEA GO_REF:0000104 UniProt GO_REF:0000104 NCBI chr14:8,941,429...8,961,418
Ensembl chr14:8,941,461...8,960,891
JBrowse link
G Crppa CDP-L-ribitol pyrophosphorylase A involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 6:53,120,264...53,397,030
Ensembl chr 6:53,121,438...53,397,028
JBrowse link
G Fdft1 farnesyl diphosphate farnesyl transferase 1 involved_in IEA GO_REF:0000043 UniProt GO_REF:0000043 NCBI chr15:37,412,143...37,440,198
Ensembl chr15:37,412,146...37,440,287
JBrowse link
G Fdps farnesyl diphosphate synthase involved_in IEA GO_REF:0000043 UniProt GO_REF:0000043 NCBI chr 2:174,497,402...174,507,031
Ensembl chr 2:174,486,665...174,507,776
JBrowse link
G Ggps1 geranylgeranyl diphosphate synthase 1 involved_in IEA
IBA
GO_REF:0000043
PMID:21873635
UniProt PMID:21873635 GO_REF:0000043, RGD:13792537 NCBI chr17:51,263,262...51,282,471
Ensembl chr17:51,263,263...51,276,220
JBrowse link
G Hmgcr 3-hydroxy-3-methylglutaryl-CoA reductase involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 2:27,997,523...28,018,983
Ensembl chr 2:27,997,525...28,019,703
JBrowse link
G Idi1 isopentenyl-diphosphate delta isomerase 1 involved_in IEA
ISO
GO_REF:0000043
(PMID:8806705)
UniProt
RGD
PMID:8806705 GO_REF:0000043 NCBI chr17:61,629,592...61,637,357
Ensembl chr17:61,629,594...61,637,357
JBrowse link
G Idi2 isopentenyl-diphosphate delta isomerase 2 involved_in ISO (PMID:17202134) RGD PMID:17202134 NCBI chr17:61,331,669...61,334,285
Ensembl chr17:61,331,669...61,334,285
JBrowse link
G Mvd mevalonate diphosphate decarboxylase involved_in ISO (PMID:11792727), (PMID:14680974) RGD PMID:11792727 PMID:14680974 NCBI chr19:50,496,366...50,506,389
Ensembl chr19:50,496,367...50,507,971
JBrowse link
G Mvk mevalonate kinase involved_in IDA
ISO
(PMID:14680974), (PMID:14730012) RGD PMID:14680974 PMID:14730012 PMID:7904598 RGD:2316851 NCBI chr12:42,141,391...42,158,858
Ensembl chr12:42,141,384...42,158,882
JBrowse link
G Pdss1 decaprenyl diphosphate synthase subunit 1 involved_in IBA
ISO
PMID:21873635
(MGI:3607849|PMID:16262699)
(PMID:16262699)
RGD PMID:16262699 PMID:21873635 MGI:3607849, RGD:13792537 NCBI chr17:85,059,953...85,098,739
Ensembl chr17:85,060,106...85,098,730
JBrowse link
G Pdss2 decaprenyl diphosphate synthase subunit 2 involved_in ISO
IBA
(PMID:16262699)
(MGI:3607849|PMID:16262699)
PMID:21873635
RGD PMID:16262699 PMID:21873635 MGI:3607849, RGD:13792537 NCBI chr20:46,709,631...46,938,704
Ensembl chr20:46,709,649...46,938,708
JBrowse link
G Pex5 peroxisomal biogenesis factor 5 NOT|acts_upstream_of_or_within ISO MGI:2154454 (MGI:2136720|PMID:11420171) RGD PMID:11420171 MGI:2136720 NCBI chr 4:157,270,671...157,296,432
Ensembl chr 4:157,270,672...157,296,431
JBrowse link
9-cis-retinoic acid biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aldh1a1 aldehyde dehydrogenase 1 family, member A1 involved_in
acts_upstream_of_or_within
IEA
ISO
GO_REF:0000107
(MGI:2662611|PMID:11876656)
Ensembl
RGD
PMID:11876656 GO_REF:0000107 MGI:2662611 NCBI chr 1:218,000,470...218,152,962
Ensembl chr 1:218,042,127...218,152,961
JBrowse link
G Aldh1a2 aldehyde dehydrogenase 1 family, member A2 acts_upstream_of_or_within ISO (MGI:2662611|PMID:11876656) RGD PMID:11876656 MGI:2662611 NCBI chr 8:71,877,850...71,957,107
Ensembl chr 8:71,877,850...71,957,107
JBrowse link
G Aldh8a1 aldehyde dehydrogenase 8 family, member A1 acts_upstream_of_or_within ISO (MGI:2662611|PMID:11876656) RGD PMID:11876656 MGI:2662611 NCBI chr 1:16,183,940...16,203,385
Ensembl chr 1:16,183,940...16,203,385
JBrowse link
G Cyp1a1 cytochrome P450, family 1, subfamily a, polypeptide 1 IDA 9-cis- and all-trans-retinoic acid synthesized from 9-cis- and all-trans-retinal RGD PMID:8765131 RGD:2306683 NCBI chr 8:58,096,021...58,102,130
Ensembl chr 8:58,096,077...58,102,125
JBrowse link
G Dhrs9 dehydrogenase/reductase 9 involved_in ISO
ISS
(PMID:11304534)
GO_REF:0000024
RGD
UniProt
PMID:11304534 GO_REF:0000024 NCBI chr 3:54,147,834...54,170,052
Ensembl chr 3:54,147,803...54,220,241
JBrowse link
G Rdh16 retinol dehydrogenase 16 acts_upstream_of_or_within ISO (MGI:2662611|PMID:11876656) RGD PMID:11876656 MGI:2662611 NCBI chr 7:63,616,724...63,624,120
Ensembl chr 7:63,597,536...63,624,124
JBrowse link
dolichol biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Acat2 acetyl-CoA acetyltransferase 2 involved_in TAS PMID:10806397 UniProt PMID:10806397 RGD:2326086 NCBI chr 1:47,695,833...47,713,879
Ensembl chr 1:47,695,788...47,752,821
JBrowse link
G Nus1 NUS1 dehydrodolichyl diphosphate synthase subunit involved_in
acts_upstream_of_or_within
IBA
ISO
PMID:21873635
(PMID:25066056)
RGD PMID:25066056 PMID:21873635 RGD:13792537 NCBI chr20:31,811,817...31,838,562
Ensembl chr20:31,811,817...31,838,561
JBrowse link
G Srd5a3 steroid 5 alpha-reductase 3 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr14:32,046,415...32,060,796
Ensembl chr14:32,046,408...32,060,747
JBrowse link
farnesyl diphosphate biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Fdps farnesyl diphosphate synthase involved_in IDA
IEA
IBA
GO_REF:0000041
PMID:21873635
UniProt
RGD
PMID:8188698 PMID:21873635 GO_REF:0000041, RGD:2316305, RGD:13792537 NCBI chr 2:174,497,402...174,507,031
Ensembl chr 2:174,486,665...174,507,776
JBrowse link
G Ggps1 geranylgeranyl diphosphate synthase 1 involved_in IEA GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr17:51,263,262...51,282,471
Ensembl chr17:51,263,263...51,276,220
JBrowse link
farnesyl diphosphate biosynthetic process, mevalonate pathway term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Hmgcs1 3-hydroxy-3-methylglutaryl-CoA synthase 1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 2:51,649,368...51,667,100
Ensembl chr 2:51,649,497...51,667,100
JBrowse link
G Hmgcs2 3-hydroxy-3-methylglutaryl-CoA synthase 2 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 2:185,875,609...185,903,505
Ensembl chr 2:185,875,616...185,902,130
JBrowse link
geranyl diphosphate biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Fdps farnesyl diphosphate synthase involved_in IEA GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr 2:174,497,402...174,507,031
Ensembl chr 2:174,486,665...174,507,776
JBrowse link
G Ggps1 geranylgeranyl diphosphate synthase 1 involved_in IEA GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr17:51,263,262...51,282,471
Ensembl chr17:51,263,263...51,276,220
JBrowse link
geranylgeranyl diphosphate biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ggps1 geranylgeranyl diphosphate synthase 1 involved_in IEA GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr17:51,263,262...51,282,471
Ensembl chr17:51,263,263...51,276,220
JBrowse link
isopentenyl diphosphate biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G AABR07028137.1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537
G AABR07028157.1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537
G Idi1 isopentenyl-diphosphate delta isomerase 1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr17:61,629,592...61,637,357
Ensembl chr17:61,629,594...61,637,357
JBrowse link
G LOC102551575 isopentenyl-diphosphate delta-isomerase 2-like involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr17:61,504,294...61,507,015
Ensembl chr17:61,504,535...61,507,015
JBrowse link
G LOC103694120 isopentenyl-diphosphate delta-isomerase 2-like involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr17:61,420,357...61,423,924 JBrowse link
G LOC291276 similar to isopentenyl diphosphate delta-isomerase type 2 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr17:61,549,335...61,553,178 JBrowse link
G RGD1564347 similar to isopentenyl diphosphate delta-isomerase type 2 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr17:61,372,853...61,386,459 JBrowse link
isopentenyl diphosphate biosynthetic process, mevalonate pathway term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Mvd mevalonate diphosphate decarboxylase involved_in IDA
IBA
PMID:21873635 RGD
GO_Central
PMID:197206 PMID:21873635 RGD:2316852, RGD:13792537 NCBI chr19:50,496,366...50,506,389
Ensembl chr19:50,496,367...50,507,971
JBrowse link
G Mvk mevalonate kinase involved_in IDA
IEA
IBA
GO_REF:0000041
PMID:21873635
UniProt
RGD
PMID:197206 PMID:21873635 GO_REF:0000041, RGD:2316852, RGD:13792537 NCBI chr12:42,141,391...42,158,858
Ensembl chr12:42,141,384...42,158,882
JBrowse link
G Pmvk phosphomevalonate kinase involved_in IDA
IBA
IEA
PMID:21873635
GO_REF:0000041
UniProt
RGD
PMID:197206 PMID:21873635 GO_REF:0000041, RGD:2316852, RGD:13792537 NCBI chr 2:174,876,586...174,886,365
Ensembl chr 2:174,876,657...174,886,364
JBrowse link
negative regulation of retinoic acid biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Akr1c3 aldo-keto reductase family 1, member C3 involved_in ISO (PMID:21851338) RGD PMID:21851338 NCBI chr17:66,110,970...66,127,867
Ensembl chr17:66,110,963...66,127,873
JBrowse link
G Prmt3 protein arginine methyltransferase 3 involved_in ISO
ISS
IEA
(PMID:33495566)
GO_REF:0000024
GO_REF:0000107
RGD
UniProt
Ensembl
PMID:33495566 GO_REF:0000024 GO_REF:0000107 NCBI chr 1:99,492,712...99,581,774
Ensembl chr 1:99,492,724...99,579,435
JBrowse link
polyprenol biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dhdds dehydrodolichyl diphosphate synthase subunit involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 5:146,198,359...146,224,479
Ensembl chr 5:146,197,457...146,224,454
JBrowse link
positive regulation of retinoic acid biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Rdh10 retinol dehydrogenase 10 IMP RGD PMID:21138835 RGD:6771354 NCBI chr 5:3,186,671...3,215,572
Ensembl chr 5:3,188,445...3,215,572
JBrowse link
G Rdh16 retinol dehydrogenase 16 IMP RGD PMID:21138835 RGD:6771354 NCBI chr 7:63,616,724...63,624,120
Ensembl chr 7:63,597,536...63,624,124
JBrowse link
retinoic acid biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aldh1a1 aldehyde dehydrogenase 1 family, member A1 IMP RGD PMID:21138835 RGD:6771354 NCBI chr 1:218,000,470...218,152,962
Ensembl chr 1:218,042,127...218,152,961
JBrowse link
G Aldh1a2 aldehyde dehydrogenase 1 family, member A2 involved_in IEP
ISO
ISS
IMP
(PMID:29240402)
GO_REF:0000024
RGD
UniProt
PMID:29240402 PMID:15950969 PMID:21138835 GO_REF:0000024, RGD:6771322, RGD:6771354 NCBI chr 8:71,877,850...71,957,107
Ensembl chr 8:71,877,850...71,957,107
JBrowse link
G Aldh1a3 aldehyde dehydrogenase 1 family, member A3 acts_upstream_of_or_within
involved_in
IEP
ISO
ISS
IEA
IMP
(MGI:1927016|PMID:11044606), (MGI:3055622|PMID:11013254), (MGI:3692370|PMID:16241904)
(MGI:3042765|PMID:14623956)
(PMID:27759097)
GO_REF:0000024
GO_REF:0000107
RGD
UniProt
Ensembl
PMID:11013254 PMID:11044606 PMID:14623956 PMID:16241904 PMID:27759097 More... GO_REF:0000024 GO_REF:0000107 MGI:1927016 MGI:3042765 MGI:3055622 MGI:3692370, RGD:6771322, RGD:6771354 NCBI chr 1:119,982,272...120,017,416
Ensembl chr 1:119,982,277...120,017,436
JBrowse link
G Crabp2 cellular retinoic acid binding protein 2 IEP RGD PMID:15950969 RGD:6771322 NCBI chr 2:173,417,004...173,421,352
Ensembl chr 2:173,416,857...173,421,379
JBrowse link
G Dhrs9 dehydrogenase/reductase 9 IEP
IDA
RGD PMID:15950969 PMID:21138835 RGD:6771322, RGD:6771354 NCBI chr 3:54,147,834...54,170,052
Ensembl chr 3:54,147,803...54,220,241
JBrowse link
G Rbp1 retinol binding protein 1 IEP RGD PMID:15950969 RGD:6771322 NCBI chr 8:99,025,218...99,046,740
Ensembl chr 8:99,025,206...99,046,743
JBrowse link
G Rdh10 retinol dehydrogenase 10 acts_upstream_of_or_within ISO (MGI:3709664|PMID:17473173) RGD PMID:17473173 MGI:3709664 NCBI chr 5:3,186,671...3,215,572
Ensembl chr 5:3,188,445...3,215,572
JBrowse link
triterpenoid biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Lss lanosterol synthase involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr20:12,091,138...12,118,858
Ensembl chr20:12,092,774...12,118,762
JBrowse link
zeaxanthin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Rpe65 retinoid isomerohydrolase RPE65 involved_in ISS
ISO
IBA
GO_REF:0000024
(PMID:28874556)
PMID:21873635
UniProt
RGD
PMID:28874556 PMID:21873635 GO_REF:0000024, RGD:13792537 NCBI chr 2:248,766,497...248,798,403
Ensembl chr 2:248,766,612...248,798,403
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19497
    metabolic process 11824
      cellular metabolic process 10719
        cellular biosynthetic process 5932
          isoprenoid biosynthetic process 40
            apocarotenoid biosynthetic process + 0
            isopentenyl diphosphate biosynthetic process + 10
            isoprenoid biosynthetic process via 1-deoxy-D-xylulose 5-phosphate 0
            isoprenoid biosynthetic process via mevalonate + 2
            polyprenol biosynthetic process + 4
            prenol biosynthetic process 0
            terpene biosynthetic process + 0
            terpenoid biosynthetic process + 18
Path 2
Term Annotations click to browse term
  biological_process 19497
    metabolic process 11824
      primary metabolic process 10535
        lipid metabolic process 1388
          cellular lipid metabolic process 1035
            isoprenoid metabolic process 120
              isoprenoid biosynthetic process 40
                apocarotenoid biosynthetic process + 0
                isopentenyl diphosphate biosynthetic process + 10
                isoprenoid biosynthetic process via 1-deoxy-D-xylulose 5-phosphate 0
                isoprenoid biosynthetic process via mevalonate + 2
                polyprenol biosynthetic process + 4
                prenol biosynthetic process 0
                terpene biosynthetic process + 0
                terpenoid biosynthetic process + 18
paths to the root