LXL04_022777 | RubberDandelionOmics

Gene overview

LXL04_022777

Reference: OH-1004 Chr: Chr05 Coordinates: 8870014-8871687 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1179 bp · LXL04_022777|LXL04_022777|OH1004|cDNA

ATGTCAAAGATCAATGGCAATGGAACATCCGCACATCGTGACTCATCAGCCACTAGGCGCCTTCCTACTCCCGGAAAAGCCACTGTGCTAGCACTCGGCAAGGCCTTTCCCAGCCAACTTATTCCACAGGATTGCTTAGTTGAAGGCTATTTCCGAGACACTAACTGCATGGATCCCGCCATGAAAGAGAAGTTGGAACGCTTGTGCAAAACAACTACCGTGAGAACCAGATACACTGTAATGTCGAAAGAAATCCTAGA...

CDS

Download CDS FASTA

1179 bp · LXL04_022777|LXL04_022777|OH1004|CDS

ATGTCAAAGATCAATGGCAATGGAACATCCGCACATCGTGACTCATCAGCCACTAGGCGCCTTCCTACTCCCGGAAAAGCCACTGTGCTAGCACTCGGCAAGGCCTTTCCCAGCCAACTTATTCCACAGGATTGCTTAGTTGAAGGCTATTTCCGAGACACTAACTGCATGGATCCCGCCATGAAAGAGAAGTTGGAACGCTTGTGCAAAACAACTACCGTGAGAACCAGATACACTGTAATGTCGAAAGAAATCCTAGA...

Protein

Download Protein FASTA

392 aa · LXL04_022777|LXL04_022777|OH1004|PROTEIN

MSKINGNGTSAHRDSSATRRLPTPGKATVLALGKAFPSQLIPQDCLVEGYFRDTNCMDPAMKEKLERLCKTTTVRTRYTVMSKEILDKYPELATEGTATISQRLSIANQAVTEMAKDASLACIKQWGRSTEDITHVVYVSSSEIRLPGGDLYLASELGLRNDVNRVMLYFLGCYGGVTGLRIAKDIAENNPGSRVLLTTSETTILGFRPPNKSRPYDLVGAALFGDGAAAAIIGADPLPSESPFLELSYAVQQFLPGTQS...

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

ID Mapping

Input ID	`LXL04_022777`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_022777

Location Chr05:8870014-8871687 (+)

Description Similar to PKSA: Type III polyketide synthase A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g02050`	Plant type III polyketide synthases (PKSs) that catalyzes the condensation of malonyl-CoA units with various CoA ester starter molecules to generate a diverse array of natural products including long-chain alkyl alpha-pyrones.	Structure function analysis of novel type III polyketide synthases from Arabidopsis thaliana.2008 · DOI: 10.1248/bpb.31.2205 LAP5 and LAP6 encode anther-specific proteins with similarity to chalcone synthase essential for pollen exine development in Arabidopsis.2010 · DOI: 10.1104/pp.110.157446 LAP6/POLYKETIDE SYNTHASE A and LAP5/POLYKETIDE SYNTHASE B encode hydroxyalkyl α-pyrone synthases required for pollen development and sporopollenin biosynthesis in Arabidopsis thaliana.2010 · DOI: 10.1105/tpc.110.080028
`At4g00040`	Plant type III polyketide synthases (PKSs) that catalyzes the condensation of malonyl-CoA units with various CoA ester starter molecules to generate a diverse array of natural products including long-chain alkyl alpha-pyrones.	No verified direct reference in this release
`At4g34850`	Plant type III polyketide synthases (PKSs) that catalyzes the condensation of malonyl-CoA units with various CoA ester starter molecules to generate a diverse array of natural products including long-chain alkyl alpha-pyrones.	Structure function analysis of novel type III polyketide synthases from Arabidopsis thaliana.2008 · DOI: 10.1248/bpb.31.2205 LAP5 and LAP6 encode anther-specific proteins with similarity to chalcone synthase essential for pollen exine development in Arabidopsis.2010 · DOI: 10.1104/pp.110.157446 LAP6/POLYKETIDE SYNTHASE A and LAP5/POLYKETIDE SYNTHASE B encode hydroxyalkyl α-pyrone synthases required for pollen development and sporopollenin biosynthesis in Arabidopsis thaliana.2010 · DOI: 10.1105/tpc.110.080028

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0411300`	Plant type III polyketide synthases (PKSs) that catalyzes the condensation of fatty acyl-CoA with malonyl-CoA to generate triketide and tetraketide alpha-pyrones, the main components of pollen exine and potential sporopollenin precursors.	The polyketide synthase OsPKS2 is essential for pollen exine and Ubisch body patterning in rice.2017 · DOI: 10.1111/jipb.12574 OsPKS2 is required for rice male fertility by participating in pollen wall formation.2018 · DOI: 10.1007/s00299-018-2265-x
`Os10g0484800`	Plant type III polyketide synthases (PKSs) that catalyzes the condensation of fatty acyl-CoA with malonyl-CoA to generate triketide and tetraketide alpha-pyrones, the main components of pollen exine and potential sporopollenin precursors.	Conserved metabolic steps for sporopollenin precursor formation in tobacco and rice.2013 · DOI: 10.1111/ppl.12018

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_022777 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009813 flavonoid biosynthetic process Biological Process

GO:0010208 pollen wall assembly Biological Process

GO:0010584 pollen exine formation Biological Process

GO:0030639 polyketide biosynthetic process Biological Process

GO:0080110 sporopollenin biosynthetic process Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0016747 acyltransferase activity, transferring groups other than amino-acyl groups Molecular Function

GO:0090439 tetraketide alpha-pyrone synthase activity Molecular Function

KEGG gene cross-reference

ath:AT1G02050

ath:AT4G00040

ath:AT4G34850

dosa:Os07g0411300

dosa:Os10g0484800

osa:4343009

osa:4348937

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

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Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Cytoplasm0.334

Rank 1 · LXL04_022777 · OH-1004

Peroxisome0.261

Rank 2 · LXL04_022777 · OH-1004

Endoplasmic reticulum0.202

Rank 3 · LXL04_022777 · OH-1004

Nucleus0.133

Rank 4 · LXL04_022777 · OH-1004

Mitochondrion0.129

Rank 5 · LXL04_022777 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF00195.26Chal_sti_synt_N18-237 aa

PF02797.22Chal_sti_synt_C246-391 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022777	`PF00195.26`	Chal_sti_synt_N	18	237	2.2e-106	355.1
LXL04_022777	`PF02797.22`	Chal_sti_synt_C	246	391	2.6e-63	213.3

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`O23674`	Arabidopsis thaliana	Type III polyketide synthase A	75.573%	Swiss-Prot	strong database homology
`O81305`	Arabidopsis thaliana	Type III polyketide synthase C	72.267%	Swiss-Prot	strong database homology
`Q8LDM2`	Arabidopsis thaliana	Type III polyketide synthase B	68.617%	Swiss-Prot	strong database homology
`Q8H305`	Oryza sativa subsp. japonica	Type III polyketide synthase 10	61.347%	Swiss-Prot	strong database homology
`A3C5V6`	Oryza sativa subsp. japonica	Type III polyketide synthase 21	63.731%	Swiss-Prot	strong database homology

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