LXL04_012465 | RubberDandelionOmics

Gene overview

LXL04_012465

Reference: OH-1004 Chr: Chr03 Coordinates: 12625334-12626764 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1431 bp · LXL04_012465|LXL04_012465|OH1004|cDNA

ATGTTTGTGTTATCGACATGCCTCTTGGCTCTATCTCTATTATACCTCTTCTATAAACTTATTGATCAAAGAATAAGCCAAACATGTTACATCTTGCATTACGAGTGCTTCAAGCCATCGGATGACCGGAAACTCTCCACCGAATTCTCCGGAAAAATGATCAGAAGGTGCAAGAATTTGGGAATCCAAGAGTATCAGTTTCTCTTACGAGCAATAGTTAGCTCAGGTATCGGTGAAGAAACCTACGCCCCAAGAAACTT...

CDS

Download CDS FASTA

1431 bp · LXL04_012465|LXL04_012465|OH1004|CDS

ATGTTTGTGTTATCGACATGCCTCTTGGCTCTATCTCTATTATACCTCTTCTATAAACTTATTGATCAAAGAATAAGCCAAACATGTTACATCTTGCATTACGAGTGCTTCAAGCCATCGGATGACCGGAAACTCTCCACCGAATTCTCCGGAAAAATGATCAGAAGGTGCAAGAATTTGGGAATCCAAGAGTATCAGTTTCTCTTACGAGCAATAGTTAGCTCAGGTATCGGTGAAGAAACCTACGCCCCAAGAAACTT...

Protein

Download Protein FASTA

476 aa · LXL04_012465|LXL04_012465|OH1004|PROTEIN

MFVLSTCLLALSLLYLFYKLIDQRISQTCYILHYECFKPSDDRKLSTEFSGKMIRRCKNLGIQEYQFLLRAIVSSGIGEETYAPRNFLSGQGTNSRLSDNLSEMDEFFTETLDKLFSRSGVFPQDIDILVVNVSVMASVPSLPSRIINHYKMRDDVKSFNLSGMGCSATLIAINIVQNMFKTHRNKFALVLTSEAISPSWYNGNERSMILTNCLFRCGGASVLLTNKRALRKKAMFKLKCLVRTHMGSSDEAFTCCTQQE...

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_012465`
TK1151 ID	TkA02G559560
OH-1004 ID	LXL04_012465
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	96.500
Protein coverage (%)	TK1151 100.000 / OH-1004 89.076 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

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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_012465

Location Chr03:12625334-12626764 (+)

Description Similar to KCS12: 3-ketoacyl-CoA synthase 12

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g28630`	3-ketoacyl-CoA synthase 12.	No verified direct reference in this release
`At1g07720`	3-ketoacyl-CoA synthase 3.	No verified direct reference in this release
`At5g04530`	3-ketoacyl-CoA synthase 19.	No verified direct reference in this release
`At1g01120`	Contributes to cuticular wax and suberin biosynthesis.	KCS1 encodes a fatty acid elongase 3-ketoacyl-CoA synthase affecting wax biosynthesis in Arabidopsis thaliana.1999 · DOI: 10.1046/j.1365-313x.1999.00352.x Specific and differential inhibition of very-long-chain fatty acid elongases from Arabidopsis thaliana by different herbicides.2004 · DOI: 10.1073/pnas.0404600101 Substrate specificity of Arabidopsis 3-ketoacyl-CoA synthases.2006 · DOI: 10.1016/j.bbrc.2006.05.162
`At4g34250`	3-ketoacyl-CoA synthase 16.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_012465 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000038 very long-chain fatty acid metabolic process Biological Process

GO:0006633 fatty acid biosynthetic process Biological Process

GO:0009409 response to cold Biological Process

GO:0009416 response to light stimulus Biological Process

GO:0010025 wax biosynthetic process Biological Process

GO:0030497 fatty acid elongation Biological Process

GO:0042761 very long-chain fatty acid biosynthetic process Biological Process

GO:0070417 cellular response to cold Biological Process

GO:0160062 cutin-based cuticle development Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

KEGG gene cross-reference

ath:AT1G01120

ath:AT1G07720

ath:AT2G28630

ath:AT4G34250

ath:AT5G04530

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.

Endoplasmic reticulum0.796

Rank 1 · LXL04_012465 · OH-1004

Cell membrane0.074

Rank 2 · LXL04_012465 · OH-1004

Cytoplasm0.071

Rank 3 · LXL04_012465 · OH-1004

Mitochondrion0.064

Rank 4 · LXL04_012465 · OH-1004

Nucleus0.052

Rank 5 · LXL04_012465 · 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.

PF08392.19FAE1_CUT1_RppA26-306 aa

PF08541.17ACP_syn_III_C332-413 aa

PF02797.22Chal_sti_synt_C335-409 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012465	`PF08392.19`	FAE1_CUT1_RppA	26	306	6.9e-113	377.5
LXL04_012465	`PF08541.17`	ACP_syn_III_C	332	413	8.8e-15	55.4
LXL04_012465	`PF02797.22`	Chal_sti_synt_C	335	409	3.9e-11	43.9

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
`Q9SIB2`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 12	61.969%	Swiss-Prot	strong database homology
`Q9LQP8`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 3	59.424%	Swiss-Prot	strong database homology
`Q9LZ72`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 19	55.430%	Swiss-Prot	strong database homology
`Q9MAM3`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 1	42.956%	Swiss-Prot	moderate database homology
`Q9SYZ0`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 16	43.237%	Swiss-Prot	moderate database homology

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