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ONTOLOGY REPORT - ANNOTATIONS


Term:vitamin biosynthetic process
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Accession:GO:0009110 term browser browse the term
Definition:The chemical reactions and pathways resulting in the formation of a vitamin, one of a number of unrelated organic substances that occur in many foods in small amounts and that are necessary in trace amounts for the normal metabolic functioning of the body.
Synonyms:exact_synonym: vitamin anabolism;   vitamin biosynthesis;   vitamin formation;   vitamin synthesis


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calcitriol biosynthetic process from calciol term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cyp27a1 cytochrome P450, family 27, subfamily a, polypeptide 1 IEA
IBA
ISO
GO_REF:0000107
PMID:21873635
(PMID:15465040)
Ensembl
RGD
PMID:15465040, PMID:21873635 GO_REF:0000107, RGD:13792537 NCBI chr 9:81,968,285...81,998,213
Ensembl chr 9:81,968,332...81,998,169
JBrowse link
G Cyp27b1 cytochrome P450, family 27, subfamily b, polypeptide 1 ISO
IBA
(PMID:15795327), (PMID:16549446), (PMID:17023519), (PMID:22862690), (PMID:9415400)
PMID:21873635
(MGI:MGI:3590419|PMID:15972816)
RGD PMID:9415400, PMID:15795327, PMID:15972816, PMID:16549446, PMID:17023519, PMID:22862690, PMID:21873635 MGI:MGI:3590419, RGD:13792537 NCBI chr 7:70,333,150...70,340,006
Ensembl chr 7:70,335,061...70,340,005
JBrowse link
G Cyp2r1 cytochrome P450, family 2, subfamily r, polypeptide 1 ISO (PMID:15465040), (PMID:18511070) RGD PMID:15465040, PMID:18511070 NCBI chr 1:184,060,521...184,106,604
Ensembl chr 1:184,093,920...184,106,200
JBrowse link
G LOC100909462 25-hydroxyvitamin D-1 alpha hydroxylase, mitochondrial-like IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537
L-ascorbic acid biosynthetic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Akr1a1 aldo-keto reductase family 1 member A1 IMP
ISO
PMID:22820017
(MGI:MGI:3588122|PMID:15769935), (MGI:MGI:4834110|PMID:20410296)
RGD PMID:15769935, PMID:20410296, PMID:22820017 MGI:MGI:3588122, MGI:MGI:4834110, RGD:13825440 NCBI chr 5:135,482,068...135,498,693
Ensembl chr 5:135,482,068...135,498,822
JBrowse link
G Gsto1 glutathione S-transferase omega 1 IMP RGD PMID:9786866 RGD:70644 NCBI chr 1:267,607,437...267,617,387
Ensembl chr 1:267,607,418...267,617,387
JBrowse link
G Gulo gulonolactone (L-) oxidase IEA
ISS
GO_REF:0000107
GO_REF:0000024
Ensembl
UniProt
GO_REF:0000024, GO_REF:0000107 NCBI chr15:42,671,206...42,693,711
Ensembl chr15:42,671,203...42,693,694
JBrowse link
G Rgn regucalcin ISO
IBA
ISS
(MGI:MGI:5486063|PMID:23349732)
PMID:21873635
GO_REF:0000024
RGD
UniProt
PMID:23349732, PMID:21873635 GO_REF:0000024, MGI:MGI:5486063, RGD:13792537 NCBI chr  X:1,833,484...1,848,904
Ensembl chr  X:1,833,492...1,848,904
JBrowse link
negative regulation of calcidiol 1-monooxygenase activity term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cyp27b1 cytochrome P450, family 27, subfamily b, polypeptide 1 ISO (PMID:16549446) RGD PMID:16549446 NCBI chr 7:70,333,150...70,340,006
Ensembl chr 7:70,335,061...70,340,005
JBrowse link
G Gfi1 growth factor independent 1 transcriptional repressor ISO (PMID:15947108) RGD PMID:15947108 NCBI chr14:3,058,035...3,073,332
Ensembl chr14:3,058,993...3,068,371
JBrowse link
G Nfkb1 nuclear factor kappa B subunit 1 ISO
IEA
(PMID:15243130)
GO_REF:0000107
RGD
Ensembl
PMID:15243130 GO_REF:0000107 NCBI chr 2:240,773,520...240,890,053
Ensembl chr 2:240,773,456...240,866,689
JBrowse link
negative regulation of vitamin D biosynthetic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Snai1 snail family transcriptional repressor 1 ISO (PMID:19502595) RGD PMID:19502595 NCBI chr 3:164,274,710...164,279,199
Ensembl chr 3:164,274,710...164,279,378
JBrowse link
G Snai2 snail family transcriptional repressor 2 ISO (PMID:18485278), (PMID:19502595) RGD PMID:18485278, PMID:19502595 NCBI chr11:90,404,421...90,406,730
Ensembl chr11:90,403,333...90,406,797
JBrowse link
positive regulation of calcidiol 1-monooxygenase activity term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ifng interferon gamma ISO (PMID:9282826) RGD PMID:9282826 NCBI chr 7:61,337,383...61,341,419
Ensembl chr 7:61,337,381...61,341,419
JBrowse link
G Il1b interleukin 1 beta IEA
ISO
GO_REF:0000107
(PMID:16720713), (PMID:17023519)
Ensembl
RGD
PMID:16720713, PMID:17023519 GO_REF:0000107 NCBI chr 3:121,876,256...121,882,637
Ensembl chr 3:121,876,263...121,882,726
JBrowse link
G Tnf tumor necrosis factor ISO (PMID:1690216) RGD PMID:1690216 NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000
JBrowse link
positive regulation of vitamin D biosynthetic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ifng interferon gamma ISO (PMID:9282826) RGD PMID:9282826 NCBI chr 7:61,337,383...61,341,419
Ensembl chr 7:61,337,381...61,341,419
JBrowse link
G Tnf tumor necrosis factor ISO (PMID:1690216) RGD PMID:1690216 NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000
JBrowse link
pyridoxal 5'-phosphate salvage term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Pdxk pyridoxal kinase IEA
IBA
GO_REF:0000002
PMID:21873635
InterPro PMID:21873635 GO_REF:0000002, RGD:13792537 NCBI chr20:10,930,651...10,952,194
Ensembl chr20:10,930,518...10,952,391
JBrowse link
G RGD1566085 similar to pyridoxal (pyridoxine, vitamin B6) kinase IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr20:10,883,952...10,912,870
Ensembl chr20:10,889,573...10,912,769
JBrowse link
pyridoxal phosphate biosynthetic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Pdxk pyridoxal kinase IDA RGD PMID:2988502 RGD:2303018 NCBI chr20:10,930,651...10,952,194
Ensembl chr20:10,930,518...10,952,391
JBrowse link
G Pnpo pyridoxamine 5'-phosphate oxidase ISO
IBA
(PMID:12824491)
PMID:21873635
RGD PMID:12824491, PMID:21873635 RGD:13792537 NCBI chr10:84,874,926...84,881,190
Ensembl chr10:84,874,927...84,881,190
JBrowse link
pyridoxine biosynthetic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Pnpo pyridoxamine 5'-phosphate oxidase IEA GO_REF:0000043 UniProt GO_REF:0000043 NCBI chr10:84,874,926...84,881,190
Ensembl chr10:84,874,927...84,881,190
JBrowse link
regulation of calcidiol 1-monooxygenase activity term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Vdr vitamin D receptor ISO
IEA
(MGI:MGI:1097206|PMID:9295274)
GO_REF:0000107
RGD
Ensembl
PMID:9295274 GO_REF:0000107, MGI:MGI:1097206 NCBI chr 7:139,344,452...139,394,138
Ensembl chr 7:139,342,063...139,394,166
JBrowse link
riboflavin biosynthetic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Rfk riboflavin kinase IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 1:236,494,221...236,501,733
Ensembl chr 1:236,494,221...236,501,733
JBrowse link
vitamin E biosynthetic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Pltp phospholipid transfer protein ISO MGI:MGI:2176342 (MGI:MGI:3622506|PMID:16467369) RGD PMID:16467369 MGI:MGI:3622506 NCBI chr 3:161,304,469...161,322,289
Ensembl chr 3:161,304,469...161,322,289
JBrowse link
vitamin K biosynthetic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ubiad1 UbiA prenyltransferase domain containing 1 ISS
IBA
ISO
GO_REF:0000024
PMID:21873635
(PMID:20953171), (PMID:23169578)
UniProt
RGD
PMID:20953171, PMID:23169578, PMID:21873635 GO_REF:0000024, RGD:13792537 NCBI chr 5:165,247,630...165,259,228
Ensembl chr 5:165,247,133...165,259,224
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20015
    metabolic process 12259
      small molecule metabolic process 1870
        vitamin metabolic process 81
          vitamin biosynthetic process 22
            fat-soluble vitamin biosynthetic process + 14
            water-soluble vitamin biosynthetic process + 8
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.