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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:energy metabolic pathway
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Accession:PW:0000033 term browser browse the term
Definition:Those metabolic reactions and pathways whose role is to release or provide energy.

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altered citric acid cycle pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Fh fumarate hydratase ISO RGD PMID:17211469 RGD:6907135 NCBI chrNW_004936526:8,936,096...8,965,155
Ensembl chrNW_004936526:8,935,991...8,965,367 		JBrowse link
G Sdhb succinate dehydrogenase complex iron sulfur subunit B ISO RGD PMID:21771581 RGD:6907134 NCBI chrNW_004936474:3,993,224...4,021,359
Ensembl chrNW_004936474:3,990,778...4,021,423 		JBrowse link
G Sdhd succinate dehydrogenase complex subunit D ISO RGD PMID:21771581 RGD:6907134 NCBI chrNW_004936612:2,357,336...2,369,204 JBrowse link
citric acid cycle pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aco2 aconitase 2 ISO SMPDB
RGD		 PMID:9712727 RGD:2306877 SMP:00057 NCBI chrNW_004936492:407,482...452,538
Ensembl chrNW_004936492:407,482...452,537 		JBrowse link
G Cs citrate synthase ISO RGD
SMPDB		 PMID:938457 PMID:9712727 RGD:2306828 RGD:2306877 SMP:00057 NCBI chrNW_004936646:676,926...704,988
Ensembl chrNW_004936646:678,307...692,777 		JBrowse link
G Dlat dihydrolipoamide S-acetyltransferase ISO SMPDB SMP:00057 NCBI chrNW_004936612:2,395,452...2,437,592
Ensembl chrNW_004936612:2,393,071...2,437,522 		JBrowse link
G Dld dihydrolipoamide dehydrogenase ISO SMPDB
RGD		 PMID:10672230 RGD:2306878 SMP:00057 NCBI chrNW_004936479:16,247,230...16,271,597
Ensembl chrNW_004936479:16,243,829...16,271,616 		JBrowse link
G Dlst dihydrolipoamide S-succinyltransferase ISO SMPDB
RGD		 PMID:10672230 RGD:2306878 SMP:00057 NCBI chrNW_004936488:4,038,985...4,061,071
Ensembl chrNW_004936488:4,038,985...4,061,087 		JBrowse link
G Fh fumarate hydratase ISO SMPDB
RGD		 PMID:938457 RGD:2306828 SMP:00057 NCBI chrNW_004936526:8,936,096...8,965,155
Ensembl chrNW_004936526:8,935,991...8,965,367 		JBrowse link
G Idh3a isocitrate dehydrogenase (NAD(+)) 3 catalytic subunit alpha ISO RGD
SMPDB		 PMID:938457 RGD:2306828 SMP:00057 NCBI chrNW_004936471:36,823,003...36,842,576
Ensembl chrNW_004936471:36,822,971...36,842,610 		JBrowse link
G Idh3b isocitrate dehydrogenase (NAD(+)) 3 non-catalytic subunit beta ISO RGD
SMPDB		 PMID:938457 RGD:2306828 SMP:00057 NCBI chrNW_004936485:16,033,287...16,038,097
Ensembl chrNW_004936485:16,033,128...16,042,821 		JBrowse link
G Idh3g isocitrate dehydrogenase (NAD(+)) 3 non-catalytic subunit gamma ISO SMPDB
RGD		 PMID:938457 RGD:2306828 SMP:00057 NCBI chrNW_004936809:666,231...675,279
Ensembl chrNW_004936809:666,337...675,214 		JBrowse link
G Mdh2 malate dehydrogenase 2 ISO SMPDB
RGD		 PMID:938457 RGD:2306828 SMP:00057 NCBI chrNW_004936543:2,194,074...2,208,626
Ensembl chrNW_004936543:2,194,032...2,208,651 		JBrowse link
G Mpc1 mitochondrial pyruvate carrier 1 ISO SMPDB SMP:00057 NCBI chrNW_004936489:16,179,321...16,181,991
Ensembl chrNW_004936489:16,179,810...16,184,020 		JBrowse link
G Ogdh oxoglutarate dehydrogenase ISO SMPDB
RGD		 PMID:9712727 PMID:10672230 RGD:2306877 RGD:2306878 SMP:00057 NCBI chrNW_004936478:19,506,845...19,584,411
Ensembl chrNW_004936478:19,506,154...19,583,364 		JBrowse link
G Pc pyruvate carboxylase ISO SMPDB SMP:00057 NCBI chrNW_004936599:2,677,770...2,793,033
Ensembl chrNW_004936599:2,677,583...2,793,197 		JBrowse link
G Pdha1 pyruvate dehydrogenase E1 subunit alpha 1 ISO SMPDB SMP:00057 NCBI chrNW_004936844:889,720...906,631
Ensembl chrNW_004936844:889,635...909,586 		JBrowse link
G Pdhb pyruvate dehydrogenase E1 subunit beta ISO SMPDB SMP:00057 NCBI chrNW_004936473:2,580,642...2,586,266
Ensembl chrNW_004936473:2,580,618...2,586,266 		JBrowse link
G Sdha succinate dehydrogenase complex flavoprotein subunit A ISO SMPDB
RGD		 PMID:16143825 RGD:2306881 SMP:00057 NCBI chrNW_004936815:1,148,963...1,167,585
Ensembl chrNW_004936815:1,148,963...1,167,568 		JBrowse link
G Sdhb succinate dehydrogenase complex iron sulfur subunit B ISO SMPDB
RGD		 PMID:16143825 RGD:2306881 SMP:00057 NCBI chrNW_004936474:3,993,224...4,021,359
Ensembl chrNW_004936474:3,990,778...4,021,423 		JBrowse link
G Sdhc succinate dehydrogenase complex subunit C ISO SMPDB
RGD		 PMID:16143825 RGD:2306881 SMP:00057 NCBI chrNW_004936903:592,641...636,845
Ensembl chrNW_004936903:601,355...636,092 		JBrowse link
G Sdhd succinate dehydrogenase complex subunit D ISO SMPDB
RGD		 PMID:16143825 RGD:2306881 SMP:00057 NCBI chrNW_004936612:2,357,336...2,369,204 JBrowse link
G Sucla2 succinate-CoA ligase ADP-forming subunit beta ISO RGD PMID:17403370 RGD:2306915 NCBI chrNW_004936565:1,313,150...1,355,693
Ensembl chrNW_004936565:1,313,150...1,355,693 		JBrowse link
G Suclg1 succinate-CoA ligase GDP/ADP-forming subunit alpha ISO SMPDB
RGD		 PMID:17403370 RGD:2306915 SMP:00057 NCBI chrNW_004936650:3,278,769...3,313,537
Ensembl chrNW_004936650:3,275,019...3,313,599 		JBrowse link
G Suclg2 succinate-CoA ligase GDP-forming subunit beta ISO RGD
SMPDB		 PMID:17403370 RGD:2306915 SMP:00057 NCBI chrNW_004936603:243,113...378,526
Ensembl chrNW_004936603:243,113...378,528 		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_004936706:1,792,298...1,801,063
Ensembl chrNW_004936706:1,790,958...1,801,139 		JBrowse link
G Gamt guanidinoacetate N-methyltransferase ISO RGD PMID:12069495 RGD:1359082 NCBI chrNW_004936588:721,436...724,475
Ensembl chrNW_004936588:721,313...724,524 		JBrowse link
G Gatm glycine amidinotransferase ISO RGD PMID:8021264 RGD:70746 NCBI chrNW_004936471:8,017,611...8,032,703
Ensembl chrNW_004936471:8,017,603...8,032,703 		JBrowse link
G Slc6a8 solute carrier family 6 member 8 ISO RGD PMID:12069495 RGD:1359082 NCBI chrNW_004936809:571,234...578,298 JBrowse link
electron transport chain pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atp5f1a ATP synthase F1 subunit alpha ISO SMPDB SMP:00355 NCBI chrNW_004936517:743,036...752,836
Ensembl chrNW_004936517:742,791...753,336 		JBrowse link
G Atp5f1b ATP synthase F1 subunit beta ISO SMPDB SMP:00355 NCBI chrNW_004936646:951,236...958,907 JBrowse link
G Atp5f1c ATP synthase F1 subunit gamma ISO SMPDB SMP:00355 NCBI chrNW_004936484:7,016,049...7,031,060 JBrowse link
G Atp5f1d ATP synthase F1 subunit delta ISO SMPDB SMP:00355 NCBI chrNW_004936588:612,255...614,894
Ensembl chrNW_004936588:611,725...617,782 		JBrowse link
G Atp5f1e ATP synthase F1 subunit epsilon ISO SMPDB SMP:00355 NCBI chrNW_004936530:1,509,605...1,513,033
Ensembl chrNW_004936530:1,509,605...1,513,175 		JBrowse link
G Atp5mc2 ATP synthase membrane subunit c locus 2 ISO SMPDB SMP:00355 NCBI chrNW_004936512:10,908,915...10,918,445
Ensembl chrNW_004936512:10,908,881...10,918,445 		JBrowse link
G Atp5pb ATP synthase peripheral stalk-membrane subunit b ISO SMPDB SMP:00355 NCBI chrNW_004936690:120,572...135,509 JBrowse link
G Gapdh glyceraldehyde-3-phosphate dehydrogenase ISO SMPDB SMP:00355 NCBI chrNW_004936709:1,243,149...1,247,782 JBrowse link
G Gpd1 glycerol-3-phosphate dehydrogenase 1 ISO SMPDB SMP:00355 NCBI chrNW_004936512:7,762,325...7,770,007
Ensembl chrNW_004936512:7,762,643...7,770,309 		JBrowse link
G Gpd2 glycerol-3-phosphate dehydrogenase 2 ISO SMPDB SMP:00355 NCBI chrNW_004936469:21,705,421...21,833,143
Ensembl chrNW_004936469:21,705,421...21,831,745 		JBrowse link
G LOC101956274 cytochrome b-c1 complex subunit 1, mitochondrial ISO SMPDB SMP:00355 NCBI chrNW_004936529:385,942...396,196
Ensembl chrNW_004936529:385,851...396,230 		JBrowse link
G Ndufa1 NADH:ubiquinone oxidoreductase subunit A1 ISO SMPDB SMP:00355 NCBI chrNW_004936479:10,074,290...10,078,072
Ensembl chrNW_004936479:10,074,307...10,078,066 		JBrowse link
G Sdha succinate dehydrogenase complex flavoprotein subunit A ISO SMPDB
RGD		 PMID:16143825 RGD:2306881 SMP:00355 NCBI chrNW_004936815:1,148,963...1,167,585
Ensembl chrNW_004936815:1,148,963...1,167,568 		JBrowse link
G Sdhb succinate dehydrogenase complex iron sulfur subunit B ISO SMPDB
RGD		 PMID:16143825 RGD:2306881 SMP:00355 NCBI chrNW_004936474:3,993,224...4,021,359
Ensembl chrNW_004936474:3,990,778...4,021,423 		JBrowse link
G Sdhc succinate dehydrogenase complex subunit C ISO SMPDB
RGD		 PMID:16143825 RGD:2306881 SMP:00355 NCBI chrNW_004936903:592,641...636,845
Ensembl chrNW_004936903:601,355...636,092 		JBrowse link
G Sdhd succinate dehydrogenase complex subunit D ISO RGD
SMPDB		 PMID:15572694 PMID:16143825 RGD:1580035 RGD:2306881 SMP:00355 NCBI chrNW_004936612:2,357,336...2,369,204 JBrowse link
G Slc25a4 solute carrier family 25 member 4 ISO SMPDB SMP:00355 NCBI chrNW_004936554:4,130,461...4,135,046
Ensembl chrNW_004936554:4,130,459...4,135,044 		JBrowse link
G Slc37a4 solute carrier family 37 member 4 ISO SMPDB SMP:00355 NCBI chrNW_004936542:3,980,538...3,987,039
Ensembl chrNW_004936542:3,980,236...3,987,066 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  pathway 3951
    classic metabolic pathway 974
      energy metabolic pathway 40
        altered energy metabolic pathway + 3
        carbon fixation pathway 0
        citric acid cycle pathway + 22
        creatine metabolic pathway 4
        methane metabolic pathway + 0
        nitrogen metabolic pathway 0
        octane oxidation pathway 0
        oxidative phosphorylation pathway + 18
        photosynthesis pathway 0
        reductive carboxylate cycle - CO2 fixation pathway 0
        sulfur metabolic pathway + 0
paths to the root