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 30 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
`LXL04_000095` TK1151: - OH-1004: LXL04_000095	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104799.1:2207439-2209229 +	go:1904630 cellular response to diterpene biological_process	Gene Card Expression Proteome JBrowse
`TkA01G585640` TK1151: TkA01G585640 OH-1004: LXL04_000813	MVA/MEP and isoprenoid MEP pathway	Low score 2	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104799.1:15076481-15077098 -	go:0010322 regulation of isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway biological_process	Gene Card Expression Proteome JBrowse
`TkA01G567340` TK1151: TkA01G567340;TkA01G567400;TkA01G567640 OH-1004: LXL04_001003	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104799.1:18342781-18343829 +	go:0102550 2-methyl-6-geranylgeranyl-1,4-benzoquinol methyltransferase activity molecular_function	Gene Card Expression Proteome JBrowse
`LXL04_001004` TK1151: - OH-1004: LXL04_001004	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationPfamSwiss-ProtPPI	CM104799.1:18361684-18363824 +	go:0102550 2-methyl-6-geranylgeranyl-1,4-benzoquinol methyltransferase activity molecular_function	Gene Card Expression Proteome JBrowse
`TkA01G539920` TK1151: TkA01G539920 OH-1004: LXL04_001401	MVA/MEP and isoprenoid MEP pathway	Low score 2	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104799.1:25698436-25701561 -	go:0010322 regulation of isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway biological_process	Gene Card Expression Proteome JBrowse
`TkA01G533320` TK1151: TkA01G533320;TkA01G533360;TkA07G392350 OH-1004: LXL04_001469	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104799.1:27318309-27321893 -	go:0046246 terpene biosynthetic process biological_process	Gene Card Expression Proteome JBrowse
`TkAUNG015580` TK1151: TkAUNG015580;TkA01G447440 OH-1004: LXL04_002304	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104799.1:45752538-45754165 +	go:0019840 isoprenoid binding molecular_function	Gene Card Expression Proteome JBrowse
`TkA03G024330` TK1151: TkA03G024330;TkA04G083280 OH-1004: LXL04_002927	MVA/MEP and isoprenoid Prenyl-donor metabolism	Low score 2	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104799.1:61405560-61409153 -	go:0051762 sesquiterpene biosynthetic process biological_process	Gene Card Expression Proteome JBrowse
`TkA07G396290` TK1151: TkA07G396290 OH-1004: LXL04_003437	MVA/MEP and isoprenoid Mevalonate pathway	Low score 2	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104799.1:79007153-79009523 -	go:1902767 isoprenoid biosynthetic process via mevalonate biological_process	Gene Card Expression Proteome JBrowse
`TkA01G356930` TK1151: TkA01G356930;TkA05G227760 OH-1004: LXL04_003458	MVA/MEP and isoprenoid MEP pathway	Low score 2	FunctionExpressionLocalizationPfamSwiss-Prot	CM104799.1:79918058-79922124 +	lxl04_003458 similar to orf vi: transactivator/viroplasmin protein (figwort mosaic virus (strain dxs) ox=10650)	Gene Card Expression Proteome JBrowse

`LXL04_000095`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source ID-

LocationCM104799.1:2207439-2209229 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:1904630 cellular response to diterpene biological_process

Gene Card Expression Proteome JBrowse

`TkA01G585640`

MVA/MEP and isoprenoidMEP pathwayLow · score 2

Source IDTkA01G585640

LocationCM104799.1:15076481-15077098 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:0010322 regulation of isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway biological_process

Gene Card Expression Proteome JBrowse

`TkA01G567340`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source IDTkA01G567340;TkA01G567400;TkA01G567640

LocationCM104799.1:18342781-18343829 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:0102550 2-methyl-6-geranylgeranyl-1,4-benzoquinol methyltransferase activity molecular_function

Gene Card Expression Proteome JBrowse

`LXL04_001004`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source ID-

LocationCM104799.1:18361684-18363824 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPI

Key evidencego:0102550 2-methyl-6-geranylgeranyl-1,4-benzoquinol methyltransferase activity molecular_function

Gene Card Expression Proteome JBrowse

`TkA01G539920`

MVA/MEP and isoprenoidMEP pathwayLow · score 2

Source IDTkA01G539920

LocationCM104799.1:25698436-25701561 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidencego:0010322 regulation of isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway biological_process

Gene Card Expression Proteome JBrowse

`TkA01G533320`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source IDTkA01G533320;TkA01G533360;TkA07G392350

LocationCM104799.1:27318309-27321893 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:0046246 terpene biosynthetic process biological_process

Gene Card Expression Proteome JBrowse

`TkAUNG015580`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source IDTkAUNG015580;TkA01G447440

LocationCM104799.1:45752538-45754165 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidencego:0019840 isoprenoid binding molecular_function

Gene Card Expression Proteome JBrowse

`TkA03G024330`

MVA/MEP and isoprenoidPrenyl-donor metabolismLow · score 2

Source IDTkA03G024330;TkA04G083280

LocationCM104799.1:61405560-61409153 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidencego:0051762 sesquiterpene biosynthetic process biological_process

Gene Card Expression Proteome JBrowse

`TkA07G396290`

MVA/MEP and isoprenoidMevalonate pathwayLow · score 2

Source IDTkA07G396290

LocationCM104799.1:79007153-79009523 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidencego:1902767 isoprenoid biosynthetic process via mevalonate biological_process

Gene Card Expression Proteome JBrowse

`TkA01G356930`

MVA/MEP and isoprenoidMEP pathwayLow · score 2

Source IDTkA01G356930;TkA05G227760

LocationCM104799.1:79918058-79922124 +

EvidenceFunctionExpressionLocalizationPfamSwiss-Prot

Key evidencelxl04_003458 similar to orf vi: transactivator/viroplasmin protein (figwort mosaic virus (strain dxs) ox=10650)

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.