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ONTOLOGY REPORT - ANNOTATIONS


Term:pigment biosynthetic process
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Accession:GO:0046148 term browser browse the term
Definition:The chemical reactions and pathways resulting in the formation of a pigment, any general or particular coloring matter in living organisms, e.g. melanin.
Synonyms:exact_synonym: pigment anabolism;   pigment biosynthesis;   pigment formation;   pigment synthesis


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pigment biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G SOX2 SRY-box transcription factor 2 acts_upstream_of_or_within ISO (MGI:2181477|PMID:12036291) MGI PMID:12036291 MGI:2181477 NCBI chr13:119,668,476...119,669,435 JBrowse link
adenine biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G GART phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr13:197,130,898...197,158,797
Ensembl chr13:197,130,904...197,161,891
JBrowse link
adenine salvage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G APRT adenine phosphoribosyltransferase involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 6:890,272...893,278
Ensembl chr 6:890,831...893,277
JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr  X:110,321,144...110,357,902
Ensembl chr  X:110,321,208...110,357,899
JBrowse link
guanine salvage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in IEA
IBA
ISS
(PMID:21873635) Ensembl
GO_Central
UniProt
PMID:21873635 GO_REF:0000024 GO_REF:0000107 NCBI chr  X:110,321,144...110,357,902
Ensembl chr  X:110,321,208...110,357,899
JBrowse link
G PRTFDC1 phosphoribosyl transferase domain containing 1 NOT|involved_in ISO (PMID:21054786) UniProt PMID:21054786 NCBI chr10:50,365,654...50,458,487
Ensembl chr10:50,365,786...50,463,271
JBrowse link
heme A biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G COX10 cytochrome c oxidase assembly factor heme A:farnesyltransferase COX10 involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:3640032|PMID:16782876)
(MGI:3604933|PMID:16103131)
Ensembl
MGI
PMID:16103131 PMID:16782876 GO_REF:0000107 MGI:3604933 MGI:3640032 NCBI chr12:58,011,831...58,110,575
Ensembl chr12:58,011,831...58,117,700
JBrowse link
G COX15 cytochrome c oxidase assembly homolog COX15 involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr14:110,875,614...110,895,044
Ensembl chr14:110,875,818...110,894,948
JBrowse link
heme B biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ABCB6 ATP binding cassette subfamily B member 6 (Langereis blood group) NOT|involved_in ISO (PMID:22655043) UniProt PMID:22655043 NCBI chr15:121,246,180...121,254,350
Ensembl chr15:121,246,186...121,254,332
JBrowse link
heme biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ABCB10 ATP binding cassette subfamily B member 10 involved_in IEA Ensembl GO_REF:0000107 NCBI chr14:60,309,893...60,346,283
Ensembl chr14:60,309,919...60,346,281
JBrowse link
G ALAD aminolevulinate dehydratase involved_in
acts_upstream_of_or_within
IBA
ISO
(PMID:21873635)
(MGI:53493|PMID:4959158), (MGI:53609|PMID:4981581), (MGI:63121|PMID:14050799)
GO_Central
MGI
RGD
PMID:1764448 PMID:4959158 PMID:4981581 PMID:14050799 PMID:21873635 MGI:53493 MGI:53609 MGI:63121 RGD:1599020 NCBI chr 1:254,015,426...254,027,584
Ensembl chr 1:254,012,196...254,027,485
JBrowse link
G ALAS2 5'-aminolevulinate synthase 2 involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr  X:47,871,519...47,896,041
Ensembl chr  X:47,871,521...47,896,003
JBrowse link
G ATP5IF1 ATP synthase inhibitory factor subunit 1 involved_in ISS
IBA
(PMID:21873635) UniProt
GO_Central
PMID:21873635 GO_REF:0000024 NCBI chr 6:85,307,242...85,309,211
Ensembl chr 6:85,307,189...85,321,350
JBrowse link
G CPOX coproporphyrinogen oxidase acts_upstream_of_or_within ISO (MGI:77569|PMID:8407975) RGD
MGI
PMID:3955059 PMID:8407975 MGI:77569 RGD:1600961 NCBI chr13:160,332,436...160,345,862
Ensembl chr13:160,332,436...160,348,232
JBrowse link
G FECH ferrochelatase involved_in
acts_upstream_of_or_within
IBA
ISO
IEA
(PMID:21873635)
(MGI:3620268|PMID:16503645), (MGI:3696634|PMID:15496139)
(MGI:3794459|PMID:16306232)
(MGI:1327758|PMID:9989256)
(MGI:79136|PMID:8611576)
GO_Central
MGI
RGD
UniProt
PMID:3955059 PMID:8611576 PMID:9989256 PMID:15496139 PMID:16306232 More... GO_REF:0000104 MGI:1327758 MGI:3620268 MGI:3696634 MGI:3794459 MGI:79136 RGD:1600961 NCBI chr 1:106,861,628...106,898,407
Ensembl chr 1:106,854,002...106,898,418
JBrowse link
G FXN frataxin involved_in IEA UniProt GO_REF:0000043 NCBI chr 1:222,412,485...222,433,224
Ensembl chr 1:222,412,500...222,461,943
JBrowse link
G HMBS hydroxymethylbilane synthase involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 9:46,300,039...46,308,681
Ensembl chr 9:46,300,050...46,313,936
JBrowse link
G HNF1A HNF1 homeobox A involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:1352605|PMID:10617683) Ensembl
MGI
PMID:10617683 GO_REF:0000107 MGI:1352605 NCBI chr14:40,868,819...40,888,322
Ensembl chr14:40,868,676...40,888,328
JBrowse link
G PGRMC1 progesterone receptor membrane component 1 involved_in ISS UniProt GO_REF:0000024 NCBI chr  X:97,735,402...97,743,424
Ensembl chr  X:97,735,328...97,743,421
JBrowse link
G PPOX protoporphyrinogen oxidase involved_in
acts_upstream_of_or_within
IBA
ISO
(PMID:21873635)
(MGI:3687447|PMID:3346226)
GO_Central
MGI
RGD
PMID:3346226 PMID:3955059 PMID:21873635 MGI:3687447 RGD:1600961 NCBI chr 4:89,277,984...89,288,946
Ensembl chr 4:89,277,117...89,288,902
JBrowse link
G SLC11A2 solute carrier family 11 member 2 involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:3691553|PMID:11739192) Ensembl
MGI
PMID:11739192 GO_REF:0000107 MGI:3691553
G UROD uroporphyrinogen decarboxylase involved_in
acts_upstream_of_or_within
IBA
ISO
(PMID:21873635)
(MGI:3703836|PMID:17360334)
GO_Central
MGI
PMID:17360334 PMID:21873635 MGI:3703836 NCBI chr 6:166,327,243...166,330,558
Ensembl chr 6:166,327,247...166,330,614
JBrowse link
G UROS uroporphyrinogen III synthase involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr14:135,101,609...135,131,082
Ensembl chr14:135,055,538...135,131,074
JBrowse link
heme O biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G COX10 cytochrome c oxidase assembly factor heme A:farnesyltransferase COX10 involved_in IEA InterPro GO_REF:0000002 NCBI chr12:58,011,831...58,110,575
Ensembl chr12:58,011,831...58,117,700
JBrowse link
hypoxanthine biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ADA adenosine deaminase involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:3640719|PMID:10720488) Ensembl
MGI
PMID:10720488 GO_REF:0000107 MGI:3640719 NCBI chr17:47,044,492...47,072,232
Ensembl chr17:47,044,495...47,072,245
JBrowse link
G PRPS1 phosphoribosyl pyrophosphate synthetase 1 involved_in ISO (PMID:17701896) UniProt PMID:17701896 NCBI chr  X:88,074,861...88,101,925
Ensembl chr  X:88,074,963...88,119,094
JBrowse link
hypoxanthine salvage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ADA adenosine deaminase involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr17:47,044,492...47,072,232
Ensembl chr17:47,044,495...47,072,245
JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in ISS
IEA
UniProt
Ensembl
GO_REF:0000024 GO_REF:0000107 NCBI chr  X:110,321,144...110,357,902
Ensembl chr  X:110,321,208...110,357,899
JBrowse link
melanin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ASIP agouti signaling protein acts_upstream_of_or_within ISO (MGI:76308|PMID:7665913) MGI PMID:7665913 MGI:76308 NCBI chr17:37,542,615...37,718,787 JBrowse link
G CITED1 Cbp/p300 interacting transactivator with Glu/Asp rich carboxy-terminal domain 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:58,179,084...58,184,778
Ensembl chr  X:58,179,087...58,184,499
JBrowse link
G DCT dopachrome tautomerase involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:76308|PMID:7665913) UniProt
MGI
PMID:7665913 GO_REF:0000043 MGI:76308 NCBI chr11:63,584,865...63,647,486
Ensembl chr11:63,584,866...63,678,314
JBrowse link
G MC1R melanocortin 1 receptor involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:76308|PMID:7665913) Ensembl
MGI
PMID:7665913 GO_REF:0000107 MGI:76308 NCBI chr 6:181,225...182,187
Ensembl chr 6:181,225...182,187
JBrowse link
G MYO5A myosin VA acts_upstream_of_or_within ISO (MGI:76308|PMID:7665913) MGI PMID:7665913 MGI:76308 NCBI chr 1:119,165,751...119,398,591
Ensembl chr 1:119,134,313...119,394,725
JBrowse link
G OCA2 OCA2 melanosomal transmembrane protein acts_upstream_of_or_within ISO (MGI:1202196|PMID:9548375), (MGI:76308|PMID:7665913) MGI PMID:7665913 PMID:9548375 MGI:1202196 MGI:76308 NCBI chr15:56,657,648...56,869,920 JBrowse link
G PMEL premelanosome protein acts_upstream_of_or_within ISO (MGI:76308|PMID:7665913) MGI PMID:7665913 MGI:76308 NCBI chr 5:21,355,611...21,365,609
Ensembl chr 5:21,355,619...21,365,068
JBrowse link
G SLC45A2 solute carrier family 45 member 2 involved_in IEA UniProt GO_REF:0000043 NCBI chr16:19,958,315...20,002,198
Ensembl chr16:19,952,451...20,023,285
JBrowse link
G TRPC1 transient receptor potential cation channel subfamily C member 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr13:83,436,343...83,498,419
Ensembl chr13:83,436,395...83,498,422
JBrowse link
G TYR tyrosinase involved_in
acts_upstream_of_or_within
IBA
ISO
(PMID:21873635)
(MGI:1202196|PMID:9548375)
(MGI:76308|PMID:7665913)
GO_Central
MGI
PMID:7665913 PMID:9548375 PMID:21873635 MGI:1202196 MGI:76308 NCBI chr 9:22,517,047...22,604,290
Ensembl chr 9:22,517,047...22,604,290
JBrowse link
G TYRP1 tyrosinase related protein 1 involved_in IEA UniProt GO_REF:0000043 NCBI chr 1:209,725,698...209,745,141
Ensembl chr 1:209,725,636...209,745,705
JBrowse link
melanin biosynthetic process from tyrosine term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DCT dopachrome tautomerase involved_in ISS
IBA
(PMID:21873635) UniProt
GO_Central
PMID:21873635 GO_REF:0000024 NCBI chr11:63,584,865...63,647,486
Ensembl chr11:63,584,866...63,678,314
JBrowse link
negative regulation of melanin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G MFSD12 major facilitator superfamily domain containing 12 involved_in IEA Ensembl GO_REF:0000107 NCBI chr 2:75,098,531...75,120,795
Ensembl chr 2:75,107,212...75,120,708
JBrowse link
G RAPGEF2 Rap guanine nucleotide exchange factor 2 involved_in ISO (MGI:5499726|PMID:16272156) UniProt PMID:16272156 MGI:5499726 NCBI chr 8:48,183,518...48,277,476
Ensembl chr 8:48,020,697...48,277,476
JBrowse link
G SLC24A5 solute carrier family 24 member 5 involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:3775882|PMID:18166528) Ensembl
MGI
PMID:18166528 GO_REF:0000107 MGI:3775882 NCBI chr 1:123,635,077...123,657,205
Ensembl chr 1:123,635,039...123,656,737
JBrowse link
G WNT5A Wnt family member 5A involved_in IEA Ensembl GO_REF:0000107 NCBI chr13:37,344,684...37,367,215
Ensembl chr13:37,344,699...37,367,207
JBrowse link
positive regulation of heme biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ABCB7 ATP binding cassette subfamily B member 7 involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:60,186,559...60,313,098
Ensembl chr  X:59,998,607...60,313,069
JBrowse link
G SLC6A9 solute carrier family 6 member 9 involved_in ISO (MGI:6450351|PMID:28495915) ARUK-UCL PMID:28495915 MGI:6450351 NCBI chr 6:167,267,193...167,301,598
Ensembl chr 6:167,268,957...167,301,599
JBrowse link
positive regulation of melanin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G APPL1 adaptor protein, phosphotyrosine interacting with PH domain and leucine zipper 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr13:39,089,157...39,124,969
Ensembl chr13:39,089,045...39,129,781
JBrowse link
G ASIP agouti signaling protein involved_in ISO (MGI:5294257|PMID:21949658) CACAO PMID:21949658 MGI:5294257 NCBI chr17:37,542,615...37,718,787 JBrowse link
G ATP7A ATPase copper transporting alpha involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:61,972,544...62,110,058
Ensembl chr  X:61,972,874...62,110,058
JBrowse link
G CDH3 cadherin 3 involved_in IEA Ensembl GO_REF:0000107 NCBI chr 6:18,190,971...18,236,184
Ensembl chr 6:18,191,664...18,235,862
JBrowse link
G GIPC1 GIPC PDZ domain containing family member 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr 2:64,780,447...64,794,922
Ensembl chr 2:64,780,442...64,798,783
JBrowse link
G PMEL premelanosome protein involved_in ISO (MGI:5294257|PMID:21949658) CACAO PMID:21949658 MGI:5294257 NCBI chr 5:21,355,611...21,365,609
Ensembl chr 5:21,355,619...21,365,068
JBrowse link
G TYRP1 tyrosinase related protein 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr 1:209,725,698...209,745,141
Ensembl chr 1:209,725,636...209,745,705
JBrowse link
protoporphyrinogen IX biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ALAD aminolevulinate dehydratase involved_in IEA UniProt GO_REF:0000041 NCBI chr 1:254,015,426...254,027,584
Ensembl chr 1:254,012,196...254,027,485
JBrowse link
G ALAS1 aminolevulinate, delta-, synthase 1 pseudogene involved_in IEA UniProt GO_REF:0000041 NCBI chr13:34,333,263...34,347,435
Ensembl chr13:34,333,113...34,347,590
JBrowse link
G ALAS2 5'-aminolevulinate synthase 2 involved_in IEA UniProt GO_REF:0000041 NCBI chr  X:47,871,519...47,896,041
Ensembl chr  X:47,871,521...47,896,003
JBrowse link
G CPOX coproporphyrinogen oxidase involved_in IBA
ISO
IEA
(PMID:21873635) GO_Central
RGD
UniProt
PMID:3814086 PMID:21873635 GO_REF:0000041 RGD:4145128 NCBI chr13:160,332,436...160,345,862
Ensembl chr13:160,332,436...160,348,232
JBrowse link
G HMBS hydroxymethylbilane synthase involved_in IEA UniProt GO_REF:0000041 NCBI chr 9:46,300,039...46,308,681
Ensembl chr 9:46,300,050...46,313,936
JBrowse link
G IREB2 iron responsive element binding protein 2 involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:3695992|PMID:15831703) Ensembl
MGI
PMID:15831703 GO_REF:0000107 MGI:3695992 NCBI chr 7:47,481,539...47,529,199
Ensembl chr 7:47,479,629...47,529,227
JBrowse link
G PPOX protoporphyrinogen oxidase involved_in IEA UniProt GO_REF:0000041 NCBI chr 4:89,277,984...89,288,946
Ensembl chr 4:89,277,117...89,288,902
JBrowse link
G UROD uroporphyrinogen decarboxylase involved_in IEA UniProt GO_REF:0000041 NCBI chr 6:166,327,243...166,330,558
Ensembl chr 6:166,327,247...166,330,614
JBrowse link
G UROS uroporphyrinogen III synthase involved_in IEA UniProt GO_REF:0000041 NCBI chr14:135,101,609...135,131,082
Ensembl chr14:135,055,538...135,131,074
JBrowse link
purine nucleobase biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G PPAT phosphoribosyl pyrophosphate amidotransferase involved_in IEA InterPro GO_REF:0000002 NCBI chr 8:55,652,194...55,701,077
Ensembl chr 8:55,652,201...55,701,077
JBrowse link
G SHMT1 serine hydroxymethyltransferase 1 involved_in IBA
IEA
(PMID:21873635) GO_Central
Ensembl
PMID:21873635 GO_REF:0000107 NCBI chr12:60,414,421...60,435,451
Ensembl chr12:60,414,446...60,435,450
JBrowse link
G SHMT2 serine hydroxymethyltransferase 2 involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 5:22,535,780...22,540,322
Ensembl chr 5:22,532,894...22,540,321
JBrowse link
regulation of heme biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC100517166 transmembrane protein 14C acts_upstream_of_or_within ISO (MGI:5581691|PMID:25157825) MGI PMID:25157825 MGI:5581691 NCBI chr 7:7,462,187...7,530,881 JBrowse link
G SRRD SRR1 domain containing involved_in ISO (MGI:6282940|PMID:28802827) UniProt PMID:28802827 MGI:6282940 NCBI chr14:44,073,562...44,097,998
Ensembl chr14:44,073,636...44,096,954
JBrowse link
regulation of melanin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CTNS cystinosin, lysosomal cystine transporter involved_in IEA Ensembl GO_REF:0000107 NCBI chr12:49,730,741...49,754,362
Ensembl chr12:49,730,955...49,753,208
JBrowse link
G MFSD12 major facilitator superfamily domain containing 12 involved_in ISO (PMID:31117290)
(MGI:6492453|PMID:33208952)
(PMID:33208952)
UniProt PMID:31117290 PMID:33208952 MGI:6492453 NCBI chr 2:75,098,531...75,120,795
Ensembl chr 2:75,107,212...75,120,708
JBrowse link
G SLC7A11 solute carrier family 7 member 11 involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:3588610|PMID:16037214) Ensembl
MGI
PMID:16037214 GO_REF:0000107 MGI:3588610 NCBI chr 8:88,608,083...88,690,589
Ensembl chr 8:88,607,884...88,940,100
JBrowse link
xanthine biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ADA adenosine deaminase involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:3640719|PMID:10720488) Ensembl
MGI
PMID:10720488 GO_REF:0000107 MGI:3640719 NCBI chr17:47,044,492...47,072,232
Ensembl chr17:47,044,495...47,072,245
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 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 6:144,206,078...144,229,471
Ensembl chr 6:144,206,077...144,293,709
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 16579
    metabolic process 10421
      pigment metabolic process 64
        pigment biosynthetic process 55
          anthocyanin-containing compound biosynthetic process + 0
          aurone biosynthetic process 0
          carotenoid biosynthetic process + 1
          chlorophyll biosynthetic process + 0
          eye pigment biosynthetic process + 0
          flavone biosynthetic process + 0
          heme biosynthetic process + 23
          melanin biosynthetic process + 21
          ocellus pigment biosynthetic process + 0
          phlobaphene biosynthetic process 0
          phytochrome chromophore biosynthetic process 0
          pigment biosynthetic process involved in pigment accumulation + 0
          pteridine biosynthetic process 0
          purine nucleobase biosynthetic process + 9
paths to the root