LXL04_017916 | RubberDandelionOmics

Gene overview

LXL04_017916

Reference: OH-1004 Chr: Chr04 Coordinates: 3535734-3537494 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1668 bp · LXL04_017916|LXL04_017916|OH1004|cDNA

ATGGCACCTACCGGAGAACAACACCTTCTGTCCACCGAAATCGTCAACCGGGGAACTGAACCTTCTGGTTGCATTTCTTTCTCAGTCAGGGTTCGCCGGAGGCTACCCGACTTTCTCCAGTCTGTGAACCTCAAGTACGTGAAGCTTGGCTACCGGTACCTAATCAACCATGGGGTTTTCTTGGCCGCTGTGCCGGTGCTGGTCCTGGTGTTTGGTGCGGAGGTGGGTCGGTTTATCAGGGAAGAACTGTGGCCGAAGCT...

CDS

Download CDS FASTA

1668 bp · LXL04_017916|LXL04_017916|OH1004|CDS

ATGGCACCTACCGGAGAACAACACCTTCTGTCCACCGAAATCGTCAACCGGGGAACTGAACCTTCTGGTTGCATTTCTTTCTCAGTCAGGGTTCGCCGGAGGCTACCCGACTTTCTCCAGTCTGTGAACCTCAAGTACGTGAAGCTTGGCTACCGGTACCTAATCAACCATGGGGTTTTCTTGGCCGCTGTGCCGGTGCTGGTCCTGGTGTTTGGTGCGGAGGTGGGTCGGTTTATCAGGGAAGAACTGTGGCCGAAGCT...

Protein

Download Protein FASTA

555 aa · LXL04_017916|LXL04_017916|OH1004|PROTEIN

MAPTGEQHLLSTEIVNRGTEPSGCISFSVRVRRRLPDFLQSVNLKYVKLGYRYLINHGVFLAAVPVLVLVFGAEVGRFIREELWPKLWDTTAGYDLVFVLVTVAVFIFTLSYYLFSTPRSIYLIDFACFKPDDDLKVTKEEFIELARKSGKFDEASLEFQKKILESSGIGDETYVPKTIGLPENISTMKEGRAEASMVIFGALDELFEKTGIQPKDVGVLVVNCSVFNPTPSISAMIINHYKMRGDILSFNLGGMGCSAG...

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_017916`
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_017916

Location Chr04:3535734-3537494 (+)

Description Similar to FDH: 3-ketoacyl-CoA synthase 10

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g26250`	Contributes to cuticular wax and suberin biosynthesis.	No verified direct reference in this release
`At1g19440`	3-ketoacyl-CoA synthase 4.	No verified direct reference in this release
`At2g16280`	Involved in the elongation of C22 to C24 fatty acids, which are precursors for the biosynthesis of cuticular waxes, aliphatic suberins, and membrane lipids, including sphingolipids and phospholipids.	Arabidopsis 3-ketoacyl-coenzyme a synthase9 is involved in the synthesis of tetracosanoic acids as precursors of cuticular waxes, suberins, sphingolipids, and phospholipids.2013 · DOI: 10.1104/pp.112.210450
`At2g26640`	Active on both saturated and mono-unsaturated acyl chains C16 to C20.	Substrate specificity of Arabidopsis 3-ketoacyl-CoA synthases.2006 · DOI: 10.1016/j.bbrc.2006.05.162
`At1g68530`	Contributes to cuticular wax and suberin biosynthesis.	CUT1, an Arabidopsis gene required for cuticular wax biosynthesis and pollen fertility, encodes a very-long-chain fatty acid condensing enzyme.1999 · DOI: 10.1105/tpc.11.5.825 Alterations in CER6, a gene identical to CUT1, differentially affect long-chain lipid content on the surface of pollen and stems.2000 · DOI: 10.1105/tpc.12.10.2001

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_017916 · 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:0008610 lipid biosynthetic process Biological Process

GO:0009409 response to cold Biological Process

GO:0009416 response to light stimulus Biological Process

GO:0009826 unidimensional cell growth Biological Process

GO:0010025 wax biosynthetic process Biological Process

GO:0090627 plant epidermal cell differentiation Biological Process

GO:0160062 cutin-based cuticle development Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005777 peroxisome Cellular Component

KEGG gene cross-reference

ath:AT1G19440

ath:AT1G68530

ath:AT2G16280

ath:AT2G26250

ath:AT2G26640

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.

Endoplasmic reticulum0.740

Rank 1 · LXL04_017916 · OH-1004

Cell membrane0.080

Rank 2 · LXL04_017916 · OH-1004

Golgi apparatus0.079

Rank 3 · LXL04_017916 · OH-1004

Nucleus0.070

Rank 4 · LXL04_017916 · OH-1004

Cytoplasm0.070

Rank 5 · LXL04_017916 · 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_RppA115-400 aa

PF08541.17ACP_syn_III_C443-523 aa

PF02797.22Chal_sti_synt_C445-525 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_017916	`PF08392.19`	FAE1_CUT1_RppA	115	400	7.4e-125	416.8
LXL04_017916	`PF08541.17`	ACP_syn_III_C	443	523	3.3e-13	50.3
LXL04_017916	`PF02797.22`	Chal_sti_synt_C	445	525	1.7e-07	32.1

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q570B4`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 10	72.414%	Swiss-Prot	strong database homology
`Q9LN49`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 4	56.238%	Swiss-Prot	strong database homology
`Q9SIX1`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 9	53.745%	Swiss-Prot	strong database homology
`O48780`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 11	52.998%	Swiss-Prot	strong database homology
`Q9XF43`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 6	52.930%	Swiss-Prot	strong database homology

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