Rubber Biosynthesis Focus

A pathway-centered entry for MVA/MEP, IPP/DMAPP, prenyl donors, CPT/CPTL, REF/SRPP, latex/root-associated and terpenoid candidate genes.

This topic is built from precomputed GFF/GO/KEGG/homology candidate sets and linked evidence from expression, proteome, localization, Pfam, Swiss-Prot, PPI, coexpression and TFBS modules. Results are candidate evidence, not experimental validation.

The current database contains 5523 candidate records, 4979 candidate genes, and 8 pathway steps; the main display is centered on the TK1151 reference while OH-1004/LXL04 remains queryable and linked.

Examples TkA01G624900 LXL04_000258

Download current filtered candidate TSV

Cross-species Research Reference

1 reference genes are counted separately from rubber-dandelion candidates. They are literature, omics, or sequence resources from Para rubber tree, guayule, a related dandelion, and Eucommia; external function or homology is not direct validation in rubber dandelion.

1. Choose a speciesClick a species card or use the filter to focus on one reference species and material context.

2. Read the evidence typeRead the evidence and boundary column: direct experiments, omics associations, and sequence resources have different interpretation ranges.

3. Verify the sourceEach DOI, article, or public database entry is clickable; download the current filter for further comparison.

Eucommia records are a trans-polyisoprene comparator only and are excluded from natural cis-rubber candidate and pathway-card counts.

1Hardy rubber treeClick to view · 1 sources · trans-1,4-polyisoprene

Download current cross-species reference TSV

Species and material	Reference gene / sequence ID	Pathway step	Evidence and boundary	Source
Hardy rubber treeEucommia ulmoidestrans-1,4-polyisopreneTransgenic roots	`EuIPI`AB041629.2IDI	Prenyl-donor metabolismTrans-polyisoprene precursor-supply reference	A_direct_genetic_experiment EuIPI overexpression was associated with higher trans-polyisoprene accumulation. Trans-polyisoprene comparator only; excluded from natural cis-rubber candidate conclusions.	10.1186/1472-6750-12-78Overexpression of EuIPI increases trans-polyisoprene accumulation

Hardy rubber tree · EuIPI

Sequence IDAB041629.2

StepPrenyl-donor metabolism · IDI

EvidenceEuIPI overexpression was associated with higher trans-polyisoprene accumulation.

BoundaryTrans-polyisoprene comparator only; excluded from natural cis-rubber candidate conclusions.

Source10.1186/1472-6750-12-78

Pathway Navigation And Candidate Distribution

MVA · Mevalonate pathway

High 40 · Medium 3 · Low 4 MEP · MEP pathway

High 23 · Medium 0 · Low 36 IPP/DMAPP/FPP · Prenyl-donor metabolism

271

High 141 · Medium 83 · Low 47 CPT/CPTL · Cis-prenyltransferase branch

High 0 · Medium 0 · Low 5 REF/SRPP · Rubber-particle proteins

High 0 · Medium 0 · Low 7 Rubber · Rubber biosynthesis candidates

288

High 1 · Medium 287 · Low 0 Terpenoid · Terpenoid metabolism

380

High 72 · Medium 107 · Low 201 Latex/root · Latex/root associated candidates

4466

High 231 · Medium 1284 · Low 2951

377 MVA/MEP and isoprenoid

Click to filter · High 204 · Medium 86 · Low 87 4466 Latex/root related candidates

Click to filter · High 231 · Medium 1284 · Low 2951 300 Rubber biosynthesis

Click to filter · High 1 · Medium 287 · Low 12 380 Terpenoid metabolism

Click to filter · High 72 · Medium 107 · Low 201

Candidate Genes

377 candidates match the current filter; 10 are shown per page (page 31 of 38). TSV exports up to 2000 rows under the current filters. Use pathway nodes or summary cards to filter, then inspect Gene Card and linked modules for evidence details.

Gene ID	Pathway/step	Confidence	Evidence layers	Location	Key evidence	Actions
`TkA01G174520` TK1151: TkA01G174520 OH-1004: LXL04_004293	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104799.1:131831356-131832928 +	go:0004311 geranylgeranyl diphosphate synthase activity molecular_function	Gene Card Expression Proteome JBrowse
`LXL04_004702` TK1151: - OH-1004: LXL04_004702	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationSwiss-ProtCoexpression	CM104799.1:143977289-143978936 +	go:1904629 response to diterpene biological_process	Gene Card Expression Proteome JBrowse
`TkA04G376110` TK1151: TkA04G376110 OH-1004: LXL04_005007	MVA/MEP and isoprenoid MEP pathway	Low score 2	FunctionExpressionLocalizationPfamSwiss-Prot	CM104799.1:152804663-152807848 -	lxl04_005007 similar to orf v: enzymatic polyprotein (figwort mosaic virus (strain dxs) ox=10650)	Gene Card Expression Proteome JBrowse
`LXL04_005819` TK1151: - OH-1004: LXL04_005819	MVA/MEP and isoprenoid MEP pathway	Low score 2	GOExpressionLocalizationSwiss-Prot	CM104799.1:174002563-174003062 -	go:0051484 isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway involved in terpenoid biosynthetic process biological_process	Gene Card Expression Proteome JBrowse
`TkA02G424520` TK1151: TkA02G424520 OH-1004: LXL04_008230	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	FunctionExpressionLocalizationSwiss-Prot	CM104800.1:93321657-93323695 +	lxl04_008230 similar to fds-2: farnesyl diphosphate synthase 2 (artemisia spiciformis ox=235357)	Gene Card Expression Proteome JBrowse
`TkA03G387730` TK1151: TkA03G387730;TkA04G393520;TkA05G333210;TkA08G155340 OH-1004: LXL04_008299	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104800.1:96072201-96076828 +	go:1904629 response to diterpene biological_process	Gene Card Expression Proteome JBrowse
`TkA03G329140` TK1151: TkA03G329140 OH-1004: LXL04_008822	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104800.1:109744573-109750028 +	go:1904629 response to diterpene biological_process	Gene Card Expression Proteome JBrowse
`TkA03G451170` TK1151: TkA03G451170 OH-1004: LXL04_009610	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104800.1:129648212-129650281 -	go:1904630 cellular response to diterpene biological_process	Gene Card Expression Proteome JBrowse
`LXL04_010231` TK1151: - OH-1004: LXL04_010231	MVA/MEP and isoprenoid Mevalonate pathway	Low score 2	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104800.1:142609906-142614122 -	go:0004420 hydroxymethylglutaryl-coa reductase (nadph) activity molecular_function	Gene Card Expression Proteome JBrowse
`TkA03G555020` TK1151: TkA03G555020 OH-1004: LXL04_010908	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104800.1:155063403-155065872 -	go:1904629 response to diterpene biological_process	Gene Card Expression Proteome JBrowse

`TkA01G174520`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source IDTkA01G174520

LocationCM104799.1:131831356-131832928 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidencego:0004311 geranylgeranyl diphosphate synthase activity molecular_function

Gene Card Expression Proteome JBrowse

`LXL04_004702`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source ID-

LocationCM104799.1:143977289-143978936 +

EvidenceGOExpressionLocalizationSwiss-ProtCoexpression

Key evidencego:1904629 response to diterpene biological_process

Gene Card Expression Proteome JBrowse

`TkA04G376110`

MVA/MEP and isoprenoidMEP pathwayLow · score 2

Source IDTkA04G376110

LocationCM104799.1:152804663-152807848 -

EvidenceFunctionExpressionLocalizationPfamSwiss-Prot

Key evidencelxl04_005007 similar to orf v: enzymatic polyprotein (figwort mosaic virus (strain dxs) ox=10650)

Gene Card Expression Proteome JBrowse

`LXL04_005819`

MVA/MEP and isoprenoidMEP pathwayLow · score 2

Source ID-

LocationCM104799.1:174002563-174003062 -

EvidenceGOExpressionLocalizationSwiss-Prot

Key evidencego:0051484 isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway involved in terpenoid biosynthetic process biological_process

Gene Card Expression Proteome JBrowse

`TkA02G424520`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source IDTkA02G424520

LocationCM104800.1:93321657-93323695 +

EvidenceFunctionExpressionLocalizationSwiss-Prot

Key evidencelxl04_008230 similar to fds-2: farnesyl diphosphate synthase 2 (artemisia spiciformis ox=235357)

Gene Card Expression Proteome JBrowse

`TkA03G387730`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source IDTkA03G387730;TkA04G393520;TkA05G333210;TkA08G155340

LocationCM104800.1:96072201-96076828 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:1904629 response to diterpene biological_process

Gene Card Expression Proteome JBrowse

`TkA03G329140`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source IDTkA03G329140

LocationCM104800.1:109744573-109750028 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:1904629 response to diterpene biological_process

Gene Card Expression Proteome JBrowse

`TkA03G451170`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source IDTkA03G451170

LocationCM104800.1:129648212-129650281 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidencego:1904630 cellular response to diterpene biological_process

Gene Card Expression Proteome JBrowse

`LXL04_010231`

MVA/MEP and isoprenoidMevalonate pathwayLow · score 2

Source ID-

LocationCM104800.1:142609906-142614122 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidencego:0004420 hydroxymethylglutaryl-coa reductase (nadph) activity molecular_function

Gene Card Expression Proteome JBrowse

`TkA03G555020`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source IDTkA03G555020

LocationCM104800.1:155063403-155065872 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:1904629 response to diterpene biological_process

Gene Card Expression Proteome JBrowse

Evidence Boundary

Current results integrate annotation, GO/KEGG, homology, predicted localization, domains, expression/proteome and network evidence. High/Medium/Low indicates evidence density and consistency, not experimental validation.