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

8 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.

8Laticiferous dandelionClick to view · 3 sources · cis-1,4-polyisoprene

Download current cross-species reference TSV

Species and material	Reference gene / sequence ID	Pathway step	Evidence and boundary	Source
Laticiferous dandelionTaraxacum brevicorniculatumcis-1,4-polyisopreneRNAi laticifers with polymer and particle assays	`TbCPT1`JQ991925.1CPT	CPT/CPTL branchLaticifer-specific cis-prenyltransferase	A_direct_experiment TbCPT1 is a direct laticifer-specific cis-rubber experimental reference in a related dandelion. External evidence in T. brevicorniculatum, not direct validation in T. kok-saghyz.	10.1104/pp.111.187880Laticifer-specific cis-prenyltransferase silencing affects natural rubber biosynthesis in Taraxacum brevicorniculatum
Laticiferous dandelionTaraxacum brevicorniculatumcis-1,4-polyisopreneRNAi laticifers with polymer and particle assays	`TbCPT2`JQ991926.1CPT	CPT/CPTL branchLaticifer-specific cis-prenyltransferase	A_direct_experiment TbCPT2 is a direct laticifer-specific cis-rubber experimental reference in a related dandelion. External evidence in T. brevicorniculatum, not direct validation in T. kok-saghyz.	10.1104/pp.111.187880Laticifer-specific cis-prenyltransferase silencing affects natural rubber biosynthesis in Taraxacum brevicorniculatum
Laticiferous dandelionTaraxacum brevicorniculatumcis-1,4-polyisopreneRNAi laticifers with polymer and particle assays	`TbCPT3`JQ991927.1CPT	CPT/CPTL branchLaticifer-specific cis-prenyltransferase	A_direct_experiment TbCPT3 is a direct laticifer-specific cis-rubber experimental reference in a related dandelion. External evidence in T. brevicorniculatum, not direct validation in T. kok-saghyz.	10.1104/pp.111.187880Laticifer-specific cis-prenyltransferase silencing affects natural rubber biosynthesis in Taraxacum brevicorniculatum
Laticiferous dandelionTaraxacum brevicorniculatumcis-1,4-polyisopreneRubber-particle extraction and heterologous assays	`TbSRPP1`JQ991928.1SRPP	REF/SRPP rubber-particle proteinsSmall rubber-particle protein	A_direct_experiment TbSRPP1 is a direct experimental reference associated with rubber-particle formation. External particle-protein evidence, not direct validation in T. kok-saghyz.	10.1111/tpj.13829Small rubber particle proteins from Taraxacum brevicorniculatum are associated with rubber particle formation
Laticiferous dandelionTaraxacum brevicorniculatumcis-1,4-polyisoprenePublic cDNA records	`TbRTA`KP763637.1RTA	Latex/root associatedRubber transferase activator reference	B_sequence_resource Sequence records support exact ID lookup and future homology mapping but do not independently establish function. Sequence record alone is not functional proof.	KP763637.1;MF471639.1;KJ911908.1;KJ911910.1Taraxacum brevicorniculatum rubber pathway sequence records
Laticiferous dandelionTaraxacum brevicorniculatumcis-1,4-polyisoprenePublic cDNA records	`TbFDPS1`KJ911908.1FDPS	Prenyl-donor metabolismPrenyl-donor synthesis reference	B_sequence_resource Sequence records support exact ID lookup and future homology mapping but do not independently establish function. Sequence record alone is not functional proof.	KP763637.1;MF471639.1;KJ911908.1;KJ911910.1Taraxacum brevicorniculatum rubber pathway sequence records
Laticiferous dandelionTaraxacum brevicorniculatumcis-1,4-polyisoprenePublic cDNA records	`TbFDPS2`KJ911910.1FDPS	Prenyl-donor metabolismPrenyl-donor synthesis reference	B_sequence_resource Sequence records support exact ID lookup and future homology mapping but do not independently establish function. Sequence record alone is not functional proof.	KP763637.1;MF471639.1;KJ911908.1;KJ911910.1Taraxacum brevicorniculatum rubber pathway sequence records
Laticiferous dandelionTaraxacum brevicorniculatumcis-1,4-polyisoprenePublic cDNA records	`TbREF`MF471639.1REF	REF/SRPP rubber-particle proteinsRubber-particle protein reference	B_sequence_resource Sequence records support exact ID lookup and future homology mapping but do not independently establish function. Sequence record alone is not functional proof.	KP763637.1;MF471639.1;KJ911908.1;KJ911910.1Taraxacum brevicorniculatum rubber pathway sequence records

Laticiferous dandelion · TbCPT1

Sequence IDJQ991925.1

StepCPT/CPTL branch · CPT

EvidenceTbCPT1 is a direct laticifer-specific cis-rubber experimental reference in a related dandelion.

BoundaryExternal evidence in T. brevicorniculatum, not direct validation in T. kok-saghyz.

Source10.1104/pp.111.187880

Laticiferous dandelion · TbCPT2

Sequence IDJQ991926.1

StepCPT/CPTL branch · CPT

EvidenceTbCPT2 is a direct laticifer-specific cis-rubber experimental reference in a related dandelion.

BoundaryExternal evidence in T. brevicorniculatum, not direct validation in T. kok-saghyz.

Source10.1104/pp.111.187880

Laticiferous dandelion · TbCPT3

Sequence IDJQ991927.1

StepCPT/CPTL branch · CPT

EvidenceTbCPT3 is a direct laticifer-specific cis-rubber experimental reference in a related dandelion.

BoundaryExternal evidence in T. brevicorniculatum, not direct validation in T. kok-saghyz.

Source10.1104/pp.111.187880

Laticiferous dandelion · TbSRPP1

Sequence IDJQ991928.1

StepREF/SRPP rubber-particle proteins · SRPP

EvidenceTbSRPP1 is a direct experimental reference associated with rubber-particle formation.

BoundaryExternal particle-protein evidence, not direct validation in T. kok-saghyz.

Source10.1111/tpj.13829

Laticiferous dandelion · TbRTA

Sequence IDKP763637.1

StepLatex/root associated · RTA

EvidenceSequence records support exact ID lookup and future homology mapping but do not independently establish function.

BoundarySequence record alone is not functional proof.

SourceKP763637.1;MF471639.1;KJ911908.1;KJ911910.1

Laticiferous dandelion · TbFDPS1

Sequence IDKJ911908.1

StepPrenyl-donor metabolism · FDPS

EvidenceSequence records support exact ID lookup and future homology mapping but do not independently establish function.

BoundarySequence record alone is not functional proof.

SourceKP763637.1;MF471639.1;KJ911908.1;KJ911910.1

Laticiferous dandelion · TbFDPS2

Sequence IDKJ911910.1

StepPrenyl-donor metabolism · FDPS

EvidenceSequence records support exact ID lookup and future homology mapping but do not independently establish function.

BoundarySequence record alone is not functional proof.

SourceKP763637.1;MF471639.1;KJ911908.1;KJ911910.1

Laticiferous dandelion · TbREF

Sequence IDMF471639.1

StepREF/SRPP rubber-particle proteins · REF

EvidenceSequence records support exact ID lookup and future homology mapping but do not independently establish function.

BoundarySequence record alone is not functional proof.

SourceKP763637.1;MF471639.1;KJ911908.1;KJ911910.1

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 37 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
`TkA05G323550` TK1151: TkA05G323550;TkA05G324060 OH-1004: LXL04_020878	MVA/MEP and isoprenoid Prenyl-donor metabolism	High score 8	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104802.1:112688802-112690656 -	GO:0016114	Gene Card Expression Proteome JBrowse
`TkA05G377690` TK1151: TkA05G377690;TkA05G377700 OH-1004: LXL04_021289	MVA/MEP and isoprenoid Prenyl-donor metabolism	High score 8	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104802.1:126644046-126646952 -	GO:0008299	Gene Card Expression Proteome JBrowse
`TkA05G398130` TK1151: TkA05G398130 OH-1004: LXL04_021464	Latex/root related candidates Latex/root associated candidates	High score 8	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104802.1:130697153-130698103 +	go:0009611 response to wounding biological_process	Gene Card Expression Proteome JBrowse
`TkA03G427710` TK1151: TkA03G427710;TkA05G400510;TkA06G297000 OH-1004: LXL04_021496	MVA/MEP and isoprenoid Prenyl-donor metabolism	High score 8	FunctionGOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104802.1:131196495-131198752 +	go:0033385 geranylgeranyl diphosphate metabolic process biological_process	Gene Card Expression Proteome JBrowse
`LXL04_021516` TK1151: - OH-1004: LXL04_021516	MVA/MEP and isoprenoid Prenyl-donor metabolism	High score 8	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104802.1:131502285-131504471 +	GO:0016114	Gene Card Expression Proteome JBrowse
`TkA05G430620` TK1151: TkA05G430620 OH-1004: LXL04_021856	Latex/root related candidates Latex/root associated candidates	High score 8	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104802.1:138732491-138734833 +	go:0010311 lateral root formation biological_process	Gene Card Expression Proteome JBrowse
`TkAUNG024690` TK1151: TkAUNG024690;TkA08G354230 OH-1004: LXL04_021889	MVA/MEP and isoprenoid Prenyl-donor metabolism	High score 8	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104802.1:139651413-139655754 -	GO:0016114	Gene Card Expression Proteome JBrowse
`TkA05G432550` TK1151: TkA05G432550 OH-1004: LXL04_021938	MVA/MEP and isoprenoid Mevalonate pathway	High score 8	FunctionGOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104802.1:140741977-140744254 +	go:0004631 phosphomevalonate kinase activity molecular_function	Gene Card Expression Proteome JBrowse
`TkA05G448690` TK1151: TkA05G448690 OH-1004: LXL04_022167	Latex/root related candidates Latex/root associated candidates	High score 8	GOExpressionLocalizationPfamSwiss-ProtPPICoexpression	CM104802.1:145578780-145584241 -	go:0010015 root morphogenesis biological_process	Gene Card Expression Proteome JBrowse
`TkA05G449000` TK1151: TkA05G449000;TkA05G449310 OH-1004: LXL04_022178	Terpenoid metabolism Terpenoid metabolism	High score 8	GOExpressionLocalizationPfamSwiss-ProtCoexpression	CM104802.1:145738953-145740020 -	GO:0016101	Gene Card Expression Proteome JBrowse

`TkA05G323550`

MVA/MEP and isoprenoidPrenyl-donor metabolismHigh · score 8

Source IDTkA05G323550;TkA05G324060

LocationCM104802.1:112688802-112690656 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidenceGO:0016114

Gene Card Expression Proteome JBrowse

`TkA05G377690`

MVA/MEP and isoprenoidPrenyl-donor metabolismHigh · score 8

Source IDTkA05G377690;TkA05G377700

LocationCM104802.1:126644046-126646952 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidenceGO:0008299

Gene Card Expression Proteome JBrowse

`TkA05G398130`

Latex/root related candidatesLatex/root associated candidatesHigh · score 8

Source IDTkA05G398130

LocationCM104802.1:130697153-130698103 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:0009611 response to wounding biological_process

Gene Card Expression Proteome JBrowse

`TkA03G427710`

MVA/MEP and isoprenoidPrenyl-donor metabolismHigh · score 8

Source IDTkA03G427710;TkA05G400510;TkA06G297000

LocationCM104802.1:131196495-131198752 +

EvidenceFunctionGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:0033385 geranylgeranyl diphosphate metabolic process biological_process

Gene Card Expression Proteome JBrowse

`LXL04_021516`

MVA/MEP and isoprenoidPrenyl-donor metabolismHigh · score 8

Source ID-

LocationCM104802.1:131502285-131504471 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidenceGO:0016114

Gene Card Expression Proteome JBrowse

`TkA05G430620`

Latex/root related candidatesLatex/root associated candidatesHigh · score 8

Source IDTkA05G430620

LocationCM104802.1:138732491-138734833 +

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidencego:0010311 lateral root formation biological_process

Gene Card Expression Proteome JBrowse

`TkAUNG024690`

MVA/MEP and isoprenoidPrenyl-donor metabolismHigh · score 8

Source IDTkAUNG024690;TkA08G354230

LocationCM104802.1:139651413-139655754 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidenceGO:0016114

Gene Card Expression Proteome JBrowse

`TkA05G432550`

MVA/MEP and isoprenoidMevalonate pathwayHigh · score 8

Source IDTkA05G432550

LocationCM104802.1:140741977-140744254 +

EvidenceFunctionGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:0004631 phosphomevalonate kinase activity molecular_function

Gene Card Expression Proteome JBrowse

`TkA05G448690`

Latex/root related candidatesLatex/root associated candidatesHigh · score 8

Source IDTkA05G448690

LocationCM104802.1:145578780-145584241 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtPPICoexpression

Key evidencego:0010015 root morphogenesis biological_process

Gene Card Expression Proteome JBrowse

`TkA05G449000`

Terpenoid metabolismTerpenoid metabolismHigh · score 8

Source IDTkA05G449000;TkA05G449310

LocationCM104802.1:145738953-145740020 -

EvidenceGOExpressionLocalizationPfamSwiss-ProtCoexpression

Key evidenceGO:0016101

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.