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Pathways
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PATHWAY ONTOLOGY - ANNOTATIONS

The Pathway Ontology (PW), is currently being developed at the Rat Genome Database. For more information about this vocabulary, please see Petri et al. The rat genome database pathway portal. Database (Oxford). 2011 Apr 8;2011:bar010. Print 2011 or contact us (http://rgd.mcw.edu/contact/index.shtml).
Term:metabolic pathway of other amino acids
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Accession:PW:0000132 term browser browse the term
Definition:Those metabolic reactions involved in the synthesis, utilization and/or degradation of amino acids other than the common 20 amino acids found in protein. Some of these amino acids like carnitine or homocysteine derive from primary amino acids.

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beta-alanine metabolic pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Abat 4-aminobutyrate aminotransferase ISO SMPDB SMP:00007 NCBI chrNW_004955442:9,422,849...9,516,054
Ensembl chrNW_004955442:9,422,849...9,516,103 		JBrowse link
G Aldh2 aldehyde dehydrogenase 2 family member ISO SMPDB SMP:00007 NCBI chrNW_004955482:8,352,569...8,383,097
Ensembl chrNW_004955482:8,352,569...8,384,899 		JBrowse link
G Aldh6a1 aldehyde dehydrogenase 6 family member A1 ISO SMPDB SMP:00007 NCBI chrNW_004955523:1,343,545...1,369,080
Ensembl chrNW_004955523:1,343,545...1,369,073 		JBrowse link
G Cndp1 carnosine dipeptidase 1 ISO SMPDB SMP:00007 NCBI chrNW_004955402:57,970,205...58,019,980
Ensembl chrNW_004955402:57,970,161...58,019,479 		JBrowse link
G Dpyd dihydropyrimidine dehydrogenase ISO SMPDB SMP:00007 NCBI chrNW_004955435:2,007,185...2,800,907
Ensembl chrNW_004955435:2,007,185...2,766,138 		JBrowse link
G Dpys dihydropyrimidinase ISO SMPDB SMP:00007 NCBI chrNW_004955417:28,183,771...28,244,309
Ensembl chrNW_004955417:28,185,407...28,244,307 		JBrowse link
G Gad1 glutamate decarboxylase 1 ISO SMPDB SMP:00007 NCBI chrNW_004955449:3,964,006...4,001,850
Ensembl chrNW_004955449:3,963,705...4,001,850 		JBrowse link
G Upb1 beta-ureidopropionase 1 ISO SMPDB SMP:00007 NCBI chrNW_004955455:7,961,296...7,992,235
Ensembl chrNW_004955455:7,961,264...7,995,946 		JBrowse link
carnitine biosynthetic pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aldh9a1 aldehyde dehydrogenase 9 family member A1 ISO SMPDB SMP:00465 NCBI chrNW_004955462:10,998,147...11,017,360 JBrowse link
G Bbox1 gamma-butyrobetaine hydroxylase 1 ISO SMPDB SMP:00465 NCBI chrNW_004955476:6,368,842...6,433,797
Ensembl chrNW_004955476:6,368,842...6,433,797 		JBrowse link
G Setd7 SET domain containing 7, histone lysine methyltransferase ISO SMPDB SMP:00465 NCBI chrNW_004955428:4,131,431...4,178,250
Ensembl chrNW_004955428:4,131,103...4,178,250 		JBrowse link
G Shmt1 serine hydroxymethyltransferase 1 ISO SMPDB SMP:00465 NCBI chrNW_004955478:10,972,791...11,001,535
Ensembl chrNW_004955478:10,978,139...11,001,202 		JBrowse link
G Tmlhe trimethyllysine hydroxylase, epsilon ISO SMPDB SMP:00465 NCBI chrNW_004955594:272,668...329,997
Ensembl chrNW_004955594:272,646...331,757 		JBrowse link
creatine metabolic pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ckm creatine kinase, M-type ISO RGD PMID:12069495 RGD:1359082 NCBI chrNW_004955555:2,318,072...2,330,733
Ensembl chrNW_004955555:2,318,072...2,336,811 		JBrowse link
G Gamt guanidinoacetate N-methyltransferase ISO RGD PMID:12069495 RGD:1359082 NCBI chrNW_004955495:6,536,541...6,539,424
Ensembl chrNW_004955495:6,536,544...6,539,424 		JBrowse link
G Gatm glycine amidinotransferase ISO RGD PMID:8021264 RGD:70746 NCBI chrNW_004955409:8,068,524...8,084,603
Ensembl chrNW_004955409:8,068,476...8,084,603 		JBrowse link
G Slc6a8 solute carrier family 6 member 8 ISO RGD PMID:12069495 RGD:1359082 NCBI chrNW_004955580:419,696...426,727 JBrowse link
glutathione metabolic pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Anpep alanyl aminopeptidase, membrane ISO SMPDB SMP:00015 NCBI chrNW_004955416:15,415,981...15,442,032
Ensembl chrNW_004955416:15,424,932...15,444,075 		JBrowse link
G Casp7 caspase 7 ISO SMPDB SMP:00015 NCBI chrNW_004955431:18,685,408...18,723,221
Ensembl chrNW_004955431:18,686,190...18,723,524 		JBrowse link
G Gclc glutamate-cysteine ligase catalytic subunit ISO RGD
SMPDB		 PMID:16137247 PMID:16183645 RGD:1582661 RGD:1582663 SMP:00015 NCBI chrNW_004955411:2,593,523...2,617,553
Ensembl chrNW_004955411:2,593,541...2,616,539 		JBrowse link
G Gclm glutamate-cysteine ligase modifier subunit ISO RGD
SMPDB		 PMID:16137247 PMID:16183645 RGD:1582661 RGD:1582663 SMP:00015 NCBI chrNW_004955423:782,468...805,384
Ensembl chrNW_004955423:782,468...805,384 		JBrowse link
G Ggct gamma-glutamylcyclotransferase ISO SMPDB SMP:00015 NCBI chrNW_004955410:31,732,272...31,739,020
Ensembl chrNW_004955410:31,731,312...31,739,020 		JBrowse link
G Ggt6 gamma-glutamyltransferase 6 ISO SMPDB SMP:00015 NCBI chrNW_004955467:12,385,525...12,388,806
Ensembl chrNW_004955467:12,385,394...12,389,521 		JBrowse link
G Gpx1 glutathione peroxidase 1 ISO SMPDB SMP:00015 NCBI chrNW_004955532:1,298,336...1,298,830 JBrowse link
G Gsr glutathione-disulfide reductase ISO SMPDB SMP:00015 NCBI chrNW_004955463:7,130,459...7,153,631
Ensembl chrNW_004955463:7,131,364...7,153,583 		JBrowse link
G Gss glutathione synthetase ISO SMPDB SMP:00015 NCBI chrNW_004955422:26,427,581...26,483,380
Ensembl chrNW_004955422:26,427,581...26,463,781 		JBrowse link
G Oplah 5-oxoprolinase, ATP-hydrolysing ISO SMPDB SMP:00015 NCBI chrNW_004955454:2,707,819...2,735,375
Ensembl chrNW_004955454:2,707,819...2,720,992 		JBrowse link
homocysteine metabolic pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ahcy adenosylhomocysteinase ISO RGD PMID:11741948 PMID:20814827 RGD:7242426 RGD:730275 NCBI chrNW_004955422:26,992,295...27,013,100
Ensembl chrNW_004955422:26,992,295...27,013,100 		JBrowse link
G As3mt arsenite methyltransferase ISO RGD PMID:11790780 RGD:625365 NCBI chrNW_004955485:7,576,627...7,599,005
Ensembl chrNW_004955485:7,575,580...7,599,559 		JBrowse link
G Carm1 coactivator associated arginine methyltransferase 1 ISO RGD PMID:15866169 RGD:1359044 NCBI chrNW_004955495:1,983,599...2,002,174
Ensembl chrNW_004955495:1,983,599...2,002,174 		JBrowse link
G Comt catechol-O-methyltransferase ISO RGD PMID:12584150 RGD:1359089 NCBI chrNW_004955442:18,130,282...18,152,153
Ensembl chrNW_004955442:18,130,987...18,137,412 		JBrowse link
G Dnmt1 DNA methyltransferase 1 ISO RGD PMID:12473678 RGD:1359078 NCBI chrNW_004955495:1,465,529...1,505,379
Ensembl chrNW_004955495:1,465,480...1,505,462 		JBrowse link
G Gamt guanidinoacetate N-methyltransferase ISO RGD PMID:15533043 RGD:1359081 NCBI chrNW_004955495:6,536,541...6,539,424
Ensembl chrNW_004955495:6,536,544...6,539,424 		JBrowse link
G Gnmt glycine N-methyltransferase ISO RGD PMID:15347642 RGD:1359070 NCBI chrNW_004955437:8,944,288...8,946,642
Ensembl chrNW_004955437:8,944,047...8,946,642 		JBrowse link
G Hnmt histamine N-methyltransferase ISO RGD PMID:11566133 RGD:1359041 NCBI chrNW_004955440:5,084,198...5,137,577
Ensembl chrNW_004955440:5,084,081...5,139,348 		JBrowse link
G Mthfr methylenetetrahydrofolate reductase ISO RGD PMID:20814827 RGD:7242426 NCBI chrNW_004955486:2,096,379...2,112,240
Ensembl chrNW_004955486:2,096,379...2,112,240 		JBrowse link
G Nnmt nicotinamide N-methyltransferase ISO RGD PMID:15922112 RGD:1359084 NCBI chrNW_004955412:15,892,906...15,916,166 JBrowse link
G Pcmt1 protein-L-isoaspartate (D-aspartate) O-methyltransferase ISO RGD PMID:8263531 RGD:729481 NCBI chrNW_004955439:11,480,094...11,531,842
Ensembl chrNW_004955439:11,480,101...11,531,839 		JBrowse link
G Pemt phosphatidylethanolamine N-methyltransferase ISO RGD PMID:8344945 RGD:729486 NCBI chrNW_004955577:365,031...443,138
Ensembl chrNW_004955577:367,288...443,138 		JBrowse link
G Pnmt phenylethanolamine N-methyltransferase ISO RGD PMID:12438084 RGD:1359087 NCBI chrNW_004955451:14,414,836...14,417,972
Ensembl chrNW_004955451:14,416,121...14,417,901 		JBrowse link
G Prmt1 protein arginine methyltransferase 1 ISO RGD PMID:15866169 RGD:1359044 NCBI chrNW_004955559:1,205,340...1,215,672
Ensembl chrNW_004955559:1,203,283...1,215,021 		JBrowse link
G Prmt5 protein arginine methyltransferase 5 ISO RGD PMID:15866169 RGD:1359044 NCBI chrNW_004955409:37,369,507...37,378,034
Ensembl chrNW_004955409:37,369,234...37,378,093 		JBrowse link
G Prmt6 protein arginine methyltransferase 6 ISO RGD PMID:15866169 RGD:1359044 NCBI chrNW_004955435:10,816,787...10,818,047
Ensembl chrNW_004955435:10,816,831...10,817,961 		JBrowse link
G Rnmt RNA guanine-7 methyltransferase ISO RGD PMID:11472630 RGD:1359071 NCBI chrNW_004955402:319,520...344,129 JBrowse link
G Setdb1 SET domain bifurcated histone lysine methyltransferase 1 ISO RGD PMID:11959841 RGD:1359072 NCBI chrNW_004955588:290,497...338,438
Ensembl chrNW_004955588:290,168...338,426 		JBrowse link
remethylation pathway of homocysteine metabolism - cobalamin dependent term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Mthfr methylenetetrahydrofolate reductase ISO RGD PMID:20814827 RGD:7242426 NCBI chrNW_004955486:2,096,379...2,112,240
Ensembl chrNW_004955486:2,096,379...2,112,240 		JBrowse link
G Mtr 5-methyltetrahydrofolate-homocysteine methyltransferase ISO RGD PMID:15845641 PMID:20814827 RGD:1359026 RGD:7242426 NCBI chrNW_004955492:3,372,915...3,474,173
Ensembl chrNW_004955492:3,376,512...3,474,180 		JBrowse link
G Mtrr 5-methyltetrahydrofolate-homocysteine methyltransferase reductase ISO RGD PMID:15979034 PMID:20814827 RGD:1359037 RGD:7242426 NCBI chrNW_004955504:5,412,290...5,435,409
Ensembl chrNW_004955504:5,413,586...5,435,645 		JBrowse link
remethylation pathway of homocysteine metabolism - cobalamin independent, betaine dependent term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ahcy adenosylhomocysteinase ISO SMPDB SMP:00123 NCBI chrNW_004955422:26,992,295...27,013,100
Ensembl chrNW_004955422:26,992,295...27,013,100 		JBrowse link
G Aldh7a1 aldehyde dehydrogenase 7 family member A1 ISO SMPDB SMP:00123 NCBI chrNW_004955521:4,365,075...4,396,105
Ensembl chrNW_004955521:4,364,638...4,396,129 		JBrowse link
G Bhmt betaine--homocysteine S-methyltransferase ISO SMPDB
RGD		 PMID:15845641 PMID:20346934 PMID:20814827 RGD:1359026 RGD:7242426 RGD:7242428 SMP:00123 NCBI chrNW_004955425:21,992,219...22,009,389
Ensembl chrNW_004955425:21,991,665...22,009,855 		JBrowse link
G Chdh choline dehydrogenase ISO SMPDB SMP:00123 NCBI chrNW_004955430:3,797,924...3,831,326
Ensembl chrNW_004955430:3,799,970...3,805,474 		JBrowse link
G Mat2a methionine adenosyltransferase 2A ISO SMPDB SMP:00123 NCBI chrNW_004955424:1,953,623...1,961,164
Ensembl chrNW_004955424:1,953,623...1,961,164 		JBrowse link
G Mat2b methionine adenosyltransferase 2 non-catalytic beta subunit ISO SMPDB SMP:00123 NCBI chrNW_004955408:16,910,414...16,924,663 JBrowse link
G Mtr 5-methyltetrahydrofolate-homocysteine methyltransferase ISO SMPDB SMP:00123 NCBI chrNW_004955492:3,372,915...3,474,173
Ensembl chrNW_004955492:3,376,512...3,474,180 		JBrowse link
G Pemt phosphatidylethanolamine N-methyltransferase ISO SMPDB SMP:00123 NCBI chrNW_004955577:365,031...443,138
Ensembl chrNW_004955577:367,288...443,138 		JBrowse link
selenoamino acid metabolic pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ahcy adenosylhomocysteinase ISO SMPDB SMP:00029 NCBI chrNW_004955422:26,992,295...27,013,100
Ensembl chrNW_004955422:26,992,295...27,013,100 		JBrowse link
G Cbs cystathionine beta-synthase ISO SMPDB SMP:00029 NCBI chrNW_004955407:38,924,355...38,939,790
Ensembl chrNW_004955407:38,924,321...38,939,790 		JBrowse link
G Cth cystathionine gamma-lyase ISO SMPDB SMP:00029 NCBI chrNW_004955423:21,542,587...21,567,935
Ensembl chrNW_004955423:21,542,179...21,567,786 		JBrowse link
G Ggt1 gamma-glutamyltransferase 1 ISO SMPDB SMP:00029 NCBI chrNW_004955455:8,082,578...8,099,523 JBrowse link
G Mars1 methionyl-tRNA synthetase 1 ISO SMPDB SMP:00029 NCBI chrNW_004955458:5,215,853...5,233,037
Ensembl chrNW_004955458:5,215,853...5,233,037 		JBrowse link
G Mat2a methionine adenosyltransferase 2A ISO SMPDB SMP:00029 NCBI chrNW_004955424:1,953,623...1,961,164
Ensembl chrNW_004955424:1,953,623...1,961,164 		JBrowse link
G Mat2b methionine adenosyltransferase 2 non-catalytic beta subunit ISO SMPDB SMP:00029 NCBI chrNW_004955408:16,910,414...16,924,663 JBrowse link
G Mettl6 methyltransferase 6, tRNA N3-cytidine ISO SMPDB SMP:00029 NCBI chrNW_004955430:1,910,557...1,933,249
Ensembl chrNW_004955430:1,909,404...1,933,239 		JBrowse link
G Papss1 3'-phosphoadenosine 5'-phosphosulfate synthase 1 ISO SMPDB SMP:00029 NCBI chrNW_004955496:1,993,423...2,057,384
Ensembl chrNW_004955496:1,993,172...2,059,174 		JBrowse link
G Scly selenocysteine lyase ISO SMPDB SMP:00029 NCBI chrNW_004955542:2,453,826...2,472,951
Ensembl chrNW_004955542:2,454,708...2,472,851 		JBrowse link
G Sephs2 selenophosphate synthetase 2 ISO SMPDB SMP:00029 NCBI chrNW_004955493:7,370,869...7,373,121
Ensembl chrNW_004955493:7,371,617...7,372,945 		JBrowse link
taurine and hypotaurine metabolic pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ado 2-aminoethanethiol dioxygenase ISO SMPDB SMP:00021 NCBI chrNW_004955425:16,049,194...16,052,275
Ensembl chrNW_004955425:16,049,284...16,050,096 		JBrowse link
G Cdo1 cysteine dioxygenase type 1 ISO SMPDB SMP:00021 NCBI chrNW_004955408:35,593,981...35,605,189
Ensembl chrNW_004955408:35,593,767...35,605,189 		JBrowse link
G Csad cysteine sulfinic acid decarboxylase ISO SMPDB SMP:00021 NCBI chrNW_004955458:423,156...449,763
Ensembl chrNW_004955458:423,085...433,429 		JBrowse link
G Gad1 glutamate decarboxylase 1 ISO SMPDB SMP:00021 NCBI chrNW_004955449:3,964,006...4,001,850
Ensembl chrNW_004955449:3,963,705...4,001,850 		JBrowse link
G Ggt6 gamma-glutamyltransferase 6 ISO SMPDB SMP:00021 NCBI chrNW_004955467:12,385,525...12,388,806
Ensembl chrNW_004955467:12,385,394...12,389,521 		JBrowse link
transsulfuration pathway of homocysteine metabolism term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cbs cystathionine beta-synthase ISO RGD
SMPDB		 PMID:9359866 PMID:20162368 RGD:1359024 RGD:7242427 SMP:00455 NCBI chrNW_004955407:38,924,355...38,939,790
Ensembl chrNW_004955407:38,924,321...38,939,790 		JBrowse link
G Cdo1 cysteine dioxygenase type 1 ISO RGD PMID:20162368 RGD:7242427 NCBI chrNW_004955408:35,593,981...35,605,189
Ensembl chrNW_004955408:35,593,767...35,605,189 		JBrowse link
G Csad cysteine sulfinic acid decarboxylase ISO RGD PMID:20162368 RGD:7242427 NCBI chrNW_004955458:423,156...449,763
Ensembl chrNW_004955458:423,085...433,429 		JBrowse link
G Cth cystathionine gamma-lyase ISO SMPDB
RGD		 PMID:9359866 PMID:20162368 RGD:1359024 RGD:7242427 SMP:00455 NCBI chrNW_004955423:21,542,587...21,567,935
Ensembl chrNW_004955423:21,542,179...21,567,786 		JBrowse link
Term paths to the root