LXL04_027979 | RubberDandelionOmics

Gene overview

LXL04_027979

Reference: OH-1004 Chr: Chr06 Coordinates: 28057630-28062394 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2196 bp · LXL04_027979|LXL04_027979|OH1004|cDNA

ATGGCAGAGCTTGCAGTGATAATGGAGGTGGGTACTGATGGTGTTGCTGTGATCACCATCTCCAATCCACCTGTCAATGCCTTTGCTGTCTCAATTATTGCTTGGTTGAAGGAGAAAATTGAACAAGCTATGACCAGAGCTGATGTAAAAGCTATCGTTTTGACTGGCAAGCATAGGAAGTTTTCTGGTGGATTTGACATCAATGTGTTTCAAAATGTTCAGCAGACTGGAAAGTTATCTCTTCTACCTGACTTATCCAT...

CDS

Download CDS FASTA

2196 bp · LXL04_027979|LXL04_027979|OH1004|CDS

ATGGCAGAGCTTGCAGTGATAATGGAGGTGGGTACTGATGGTGTTGCTGTGATCACCATCTCCAATCCACCTGTCAATGCCTTTGCTGTCTCAATTATTGCTTGGTTGAAGGAGAAAATTGAACAAGCTATGACCAGAGCTGATGTAAAAGCTATCGTTTTGACTGGCAAGCATAGGAAGTTTTCTGGTGGATTTGACATCAATGTGTTTCAAAATGTTCAGCAGACTGGAAAGTTATCTCTTCTACCTGACTTATCCAT...

Protein

Download Protein FASTA

731 aa · LXL04_027979|LXL04_027979|OH1004|PROTEIN

MAELAVIMEVGTDGVAVITISNPPVNAFAVSIIAWLKEKIEQAMTRADVKAIVLTGKHRKFSGGFDINVFQNVQQTGKLSLLPDLSIDLVVNKIEDAKKPIVVAIEGLALGAGLEVAMGCHARIATPNAQLGLPELSLGIIPGAGGTQRLPRLLGLPKALDMMLTSKPILSEEGHKLGLIDAIVPPQDLLKVSRQWALDIANNRKPWARSLHLVDKIGSLSEAHEIVKIARGKVKEIWPNMPQHLACLDVIMEGIVHGGY...

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_027979`
TK1151 ID	TkA07G110570
OH-1004 ID	LXL04_027979
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	96.700
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_027979

Location Chr06:28057630-28062394 (-)

Description Similar to AIM1: Peroxisomal fatty acid beta-oxidation multifunctional protein AIM1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g29010`	Involved in peroxisomal fatty acid beta-oxidation.	A defect in beta-oxidation causes abnormal inflorescence development in Arabidopsis.1999 · DOI: 10.1105/tpc.11.10.1911 Jasmonate biosynthesis in Arabidopsis thaliana requires peroxisomal beta-oxidation enzymes--additional proof by properties of pex6 and aim1.2007 · DOI: 10.1016/j.phytochem.2007.04.024 The multifunctional protein in peroxisomal beta-oxidation: structure and substrate specificity of the Arabidopsis thaliana protein MFP2.2010 · DOI: 10.1074/jbc.m110.106005
`At3g06860`	Involved in peroxisomal fatty acid beta-oxidation during seed germination.	The Arabidopsis thaliana multifunctional protein gene (MFP2) of peroxisomal beta-oxidation is essential for seedling establishment.2006 · DOI: 10.1111/j.1365-313x.2005.02650.x The multifunctional protein in peroxisomal beta-oxidation: structure and substrate specificity of the Arabidopsis thaliana protein MFP2.2010 · DOI: 10.1074/jbc.m110.106005 Peroxisomal β-oxidation regulates histone acetylation and DNA methylation in Arabidopsis .2019 · DOI: 10.1073/pnas.1904143116

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0274100`	Multifunctional enzyme involved in fatty acid beta-oxidation.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_027979 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006635 fatty acid beta-oxidation Biological Process

GO:0009695 jasmonic acid biosynthetic process Biological Process

GO:0009845 seed germination Biological Process

GO:0009908 flower development Biological Process

GO:0005730 nucleolus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005777 peroxisome Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005874 microtubule Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0009506 plasmodesma Cellular Component

KEGG gene cross-reference

ath:AT3G06860

ath:AT4G29010

bna:106389027

csv:101210295

dosa:Os02g0274100

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.

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.

Peroxisome0.535

Rank 1 · LXL04_027979 · OH-1004

Cytoplasm0.252

Rank 2 · LXL04_027979 · OH-1004

Mitochondrion0.164

Rank 3 · LXL04_027979 · OH-1004

Plastid0.069

Rank 4 · LXL04_027979 · OH-1004

Nucleus0.068

Rank 5 · LXL04_027979 · 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.

PF00378.26ECH_113-207 aa

PF16113.11ECH_217-196 aa

PF02737.253HCDH_N310-488 aa

PF00725.283HCDH491-584 aa

PF00725.283HCDH633-711 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027979	`PF00378.26`	ECH_1	13	207	1.2e-38	133.6
LXL04_027979	`PF16113.11`	ECH_2	17	196	4.2e-22	79.8
LXL04_027979	`PF02737.25`	3HCDH_N	310	488	2.5e-58	197.7
LXL04_027979	`PF00725.28`	3HCDH	491	584	4.1e-25	88.8
LXL04_027979	`PF00725.28`	3HCDH	633	711	4.1e-25	88.8

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
`Q9ZPI6`	Arabidopsis thaliana	Peroxisomal fatty acid beta-oxidation multifunctional protein AIM1	67.215%	Swiss-Prot	strong database homology
`Q9ZPI5`	Arabidopsis thaliana	Peroxisomal fatty acid beta-oxidation multifunctional protein MFP2	53.804%	Swiss-Prot	strong database homology
`Q8W1L6`	Oryza sativa subsp. japonica	Peroxisomal fatty acid beta-oxidation multifunctional protein	61.728%	Swiss-Prot	strong database homology

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