LXL04_004000 | RubberDandelionOmics

Gene overview

LXL04_004000

Reference: OH-1004 Chr: Chr01 Coordinates: 121294480-121297563 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1530 bp · LXL04_004000|LXL04_004000|OH1004|cDNA

CGACACCGCCATACCACGCATCAAACGATAAGTATCACACATCCCAATGTTCAACCTTTACACGCTCTAAATAATTTCTCCTTCTATATATATCAAGATCGCTGCTGCACATCGTTGCTTCTACGGTTAACCAATCCATACGCTCAAGCAATCTTTATTTTTTTCCTAGAGAAAATGGATAGAGCAATTGAGAGACAACGAGTTCTGCTGGAACATCTTCGTCCATCTTCCACCTCTTCATCCTTGGAAAATCTCGATTC...

CDS

Download CDS FASTA

1416 bp · LXL04_004000|LXL04_004000|OH1004|CDS

TTGCTTCTACGGTTAACCAATCCATACGCTCAAGCAATCTTTATTTTTTTCCTAGAGAAAATGGATAGAGCAATTGAGAGACAACGAGTTCTGCTGGAACATCTTCGTCCATCTTCCACCTCTTCATCCTTGGAAAATCTCGATTCTTCAATTTCCGCTTCAGTGTGCGCAGCTGGCGATAGTGCTGCTTATCAAAGGAGCTCTGTTTTTGGGGACGATGTCGTAATTGTCGCTGCATACCGATCTCCCCTTTGCAAATC...

Protein

Download Protein FASTA

471 aa · LXL04_004000|LXL04_004000|OH1004|PROTEIN

MLLRLTNPYAQAIFIFFLEKMDRAIERQRVLLEHLRPSSTSSSLENLDSSISASVCAAGDSAAYQRSSVFGDDVVIVAAYRSPLCKSKRGGFKDTYPDDILAPVLKALIEKTNVNPAEVGDIVVGSVLGPGSQRASECRMAAFYAGFPETVPIRTVNRQCSSGLQAVADVAAAIKAGFYDIGIGAGLESMTANPMAWEGSVNPKVKTMAQAQDCLLPMGITSENVAQQFSVTRQEQDQAAVDSHRKAAAATAAGRFKDEI...

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_004000`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_004000

Location Chr01:121294480-121297563 (+)

Description Similar to PED1: 3-ketoacyl-CoA thiolase 2, peroxisomal

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g33150`	Involved in long chain fatty-acid beta-oxidation prior to gluconeogenesis during germination and subsequent seedling growth.	Evidence supporting a role of jasmonic acid in Arabidopsis leaf senescence.2002 · DOI: 10.1104/pp.010843 Gene-specific involvement of beta-oxidation in wound-activated responses in Arabidopsis.2004 · DOI: 10.1104/pp.104.039925 Arabidopsis 3-ketoacyl-CoA thiolase-2 (KAT2), an enzyme of fatty acid β-oxidation, is involved in ABA signal transduction.2011 · DOI: 10.1093/pcp/pcr008 2,4-Dichlorophenoxybutyric acid-resistant mutants of Arabidopsis have defects in glyoxysomal fatty acid beta-oxidation.1998 · DOI: 10.1105/tpc.10.2.183
`At1g04710`	Involved in fatty-acid beta-oxidation prior to gluconeogenesis during germination and subsequent seedling growth.	No verified direct reference in this release
`At5g48880`	Probably involved in long chain fatty-acid beta-oxidation prior to gluconeogenesis during germination and subsequent seedling growth.	Requirement for 3-ketoacyl-CoA thiolase-2 in peroxisome development, fatty acid beta-oxidation and breakdown of triacylglycerol in lipid bodies of Arabidopsis seedlings.2001 · DOI: 10.1046/j.1365-313x.2001.01095.x Gene-specific involvement of beta-oxidation in wound-activated responses in Arabidopsis.2004 · DOI: 10.1104/pp.104.039925

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_004000 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006633 fatty acid biosynthetic process Biological Process

GO:0006635 fatty acid beta-oxidation Biological Process

GO:0009611 response to wounding Biological Process

GO:0009695 jasmonic acid biosynthetic process Biological Process

GO:0009789 positive regulation of abscisic acid-activated signaling pathway Biological Process

GO:0010111 glyoxysome organization Biological Process

GO:0010124 phenylacetate catabolic process Biological Process

GO:0010597 green leaf volatile biosynthetic process Biological Process

GO:0031408 oxylipin biosynthetic process Biological Process

GO:0033540 fatty acid beta-oxidation using acyl-CoA oxidase Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005730 nucleolus Cellular Component

KEGG gene cross-reference

ath:AT1G04710

ath:AT2G33150

ath:AT5G48880

rno:501072

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

Open Annotation Module

Gene expression

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

View expression for this gene

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.

Peroxisome0.508

Rank 1 · LXL04_004000 · OH-1004

Mitochondrion0.281

Rank 2 · LXL04_004000 · OH-1004

Cytoplasm0.172

Rank 3 · LXL04_004000 · OH-1004

Nucleus0.060

Rank 4 · LXL04_004000 · OH-1004

Endoplasmic reticulum0.055

Rank 5 · LXL04_004000 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

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

PF00108.30Thiolase_N74-329 aa

PF02803.25Thiolase_C338-460 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_004000	`PF00108.30`	Thiolase_N	74	329	1.9e-75	254.3
LXL04_004000	`PF02803.25`	Thiolase_C	338	460	3e-49	166.4

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
`Q56WD9`	Arabidopsis thaliana	3-ketoacyl-CoA thiolase 2, peroxisomal	85.366%	Swiss-Prot	strong database homology
`Q8LF48`	Arabidopsis thaliana	3-ketoacyl-CoA thiolase 1, peroxisomal	79.911%	Swiss-Prot	strong database homology
`Q570C8`	Arabidopsis thaliana	3-ketoacyl-CoA thiolase 5, peroxisomal	69.011%	Swiss-Prot	strong database homology

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