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

2000 candidates match the current filter; 10 are shown per page (page 60 of 200). 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
`TkA01G076710` TK1151: TkA01G076710 OH-1004: LXL04_005198	Rubber biosynthesis Rubber biosynthesis candidates	Medium score 6	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104799.1:157614920-157616823 -	GO:0016740	Gene Card Expression Proteome JBrowse
`TkA01G073300` TK1151: TkA01G073300;TkA03G097210 OH-1004: LXL04_005248	Terpenoid metabolism Terpenoid metabolism	Medium score 6	FunctionGOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104799.1:158888329-158892117 +	go:0010436 carotenoid dioxygenase activity molecular_function	Gene Card Expression Proteome JBrowse
`TkA03G042580` TK1151: TkA03G042580 OH-1004: LXL04_005268	Latex/root related candidates Latex/root associated candidates	Medium score 6	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104799.1:159322606-159327435 +	go:0010053 root epidermal cell differentiation biological_process	Gene Card Expression Proteome JBrowse
`TkA01G061130` TK1151: TkA01G061130 OH-1004: LXL04_005365	Latex/root related candidates Latex/root associated candidates	Medium score 6	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104799.1:161767099-161769144 +	go:0010082 regulation of root meristem growth biological_process	Gene Card Expression Proteome JBrowse
`TkA01G048970` TK1151: TkA01G048970 OH-1004: LXL04_005447	Latex/root related candidates Latex/root associated candidates	Medium score 6	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104799.1:164261593-164262553 -	go:0006970 response to osmotic stress biological_process	Gene Card Expression Proteome JBrowse
`TkA03G453190` TK1151: TkA03G453190 OH-1004: LXL04_005456	Latex/root related candidates Latex/root associated candidates	Medium score 6	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104799.1:164549986-164552593 +	go:0010311 lateral root formation biological_process	Gene Card Expression Proteome JBrowse
`TkA01G043610` TK1151: TkA01G043610;TkA03G526010;TkA08G073090 OH-1004: LXL04_005481	Terpenoid metabolism Terpenoid metabolism	Medium score 6	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104799.1:165126249-165126932 -	GO:0006720	Gene Card Expression Proteome JBrowse
`TkA01G016400` TK1151: TkA01G016400 OH-1004: LXL04_005800	MVA/MEP and isoprenoid Prenyl-donor metabolism	Medium score 6	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104799.1:173577927-173579741 -	GO:0016114	Gene Card Expression Proteome JBrowse
`TkA01G016400` TK1151: TkA01G016400 OH-1004: LXL04_005800	Rubber biosynthesis Rubber biosynthesis candidates	Medium score 6	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104799.1:173577927-173579741 -	GO:0016114	Gene Card Expression Proteome JBrowse
`TkA01G004350` TK1151: TkA01G004350;TkA03G421100;TkA03G421120;TkA04G040120;TkA04G043700 OH-1004: LXL04_005959	Rubber biosynthesis Rubber biosynthesis candidates	Medium score 6	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104799.1:176367527-176372388 -	GO:0016740	Gene Card Expression Proteome JBrowse

`TkA01G076710`

Rubber biosynthesisRubber biosynthesis candidatesMedium · score 6

Source IDTkA01G076710

LocationCM104799.1:157614920-157616823 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidenceGO:0016740

Gene Card Expression Proteome JBrowse

`TkA01G073300`

Terpenoid metabolismTerpenoid metabolismMedium · score 6

Source IDTkA01G073300;TkA03G097210

LocationCM104799.1:158888329-158892117 +

EvidenceFunctionGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:0010436 carotenoid dioxygenase activity molecular_function

Gene Card Expression Proteome JBrowse

`TkA03G042580`

Latex/root related candidatesLatex/root associated candidatesMedium · score 6

Source IDTkA03G042580

LocationCM104799.1:159322606-159327435 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidencego:0010053 root epidermal cell differentiation biological_process

Gene Card Expression Proteome JBrowse

`TkA01G061130`

Latex/root related candidatesLatex/root associated candidatesMedium · score 6

Source IDTkA01G061130

LocationCM104799.1:161767099-161769144 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:0010082 regulation of root meristem growth biological_process

Gene Card Expression Proteome JBrowse

`TkA01G048970`

Latex/root related candidatesLatex/root associated candidatesMedium · score 6

Source IDTkA01G048970

LocationCM104799.1:164261593-164262553 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:0006970 response to osmotic stress biological_process

Gene Card Expression Proteome JBrowse

`TkA03G453190`

Latex/root related candidatesLatex/root associated candidatesMedium · score 6

Source IDTkA03G453190

LocationCM104799.1:164549986-164552593 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:0010311 lateral root formation biological_process

Gene Card Expression Proteome JBrowse

`TkA01G043610`

Terpenoid metabolismTerpenoid metabolismMedium · score 6

Source IDTkA01G043610;TkA03G526010;TkA08G073090

LocationCM104799.1:165126249-165126932 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidenceGO:0006720

Gene Card Expression Proteome JBrowse

`TkA01G016400`

MVA/MEP and isoprenoidPrenyl-donor metabolismMedium · score 6

Source IDTkA01G016400

LocationCM104799.1:173577927-173579741 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidenceGO:0016114

Gene Card Expression Proteome JBrowse

`TkA01G016400`

Rubber biosynthesisRubber biosynthesis candidatesMedium · score 6

Source IDTkA01G016400

LocationCM104799.1:173577927-173579741 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidenceGO:0016114

Gene Card Expression Proteome JBrowse

`TkA01G004350`

Rubber biosynthesisRubber biosynthesis candidatesMedium · score 6

Source IDTkA01G004350;TkA03G421100;TkA03G421120;TkA04G040120;TkA04G043700

LocationCM104799.1:176367527-176372388 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidenceGO:0016740

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.