LXL04_018774 | RubberDandelionOmics

Gene overview

LXL04_018774

Reference: OH-1004 Chr: Chr04 Coordinates: 18005839-18016286 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1788 bp · LXL04_018774|LXL04_018774|OH1004|cDNA

ATGGTTTCCAGGTTTAGGTTTTGTTATGATGTTTCGTTAAATTTGTGGGATTTCATCACACCACTTTTCATGTTCATCACCAACATCATGAACTTGAAGAATCTTATCTACCCTCTTCTAAATTCCAACACACATATTATGTTCTTAGCCCTACTCATATCATGTCTTATTCTGTTATGTTTTTTCATCACCAAAAAACCTTCATGCAAAGTTTACTTACTAGATTTCGCTTGCTTCAAGCCTCCAAATTCACAAAAGTG...

CDS

Download CDS FASTA

1788 bp · LXL04_018774|LXL04_018774|OH1004|CDS

ATGGTTTCCAGGTTTAGGTTTTGTTATGATGTTTCGTTAAATTTGTGGGATTTCATCACACCACTTTTCATGTTCATCACCAACATCATGAACTTGAAGAATCTTATCTACCCTCTTCTAAATTCCAACACACATATTATGTTCTTAGCCCTACTCATATCATGTCTTATTCTGTTATGTTTTTTCATCACCAAAAAACCTTCATGCAAAGTTTACTTACTAGATTTCGCTTGCTTCAAGCCTCCAAATTCACAAAAGTG...

Protein

Download Protein FASTA

595 aa · LXL04_018774|LXL04_018774|OH1004|PROTEIN

MVSRFRFCYDVSLNLWDFITPLFMFITNIMNLKNLIYPLLNSNTHIMFLALLISCLILLCFFITKKPSCKVYLLDFACFKPPNSQKCTKEMVIKRAIDTGYFSEKTLDFMRKTLERCGIGDSTYLAEIFFGESQKYTPSMKDSRKEVEMAIFGSIDMLLAKTCVRSEDIGILIVNCCIYNTNPSLSSMIVNRYTLRDDVVSYNLVGMGCSAGLLAIGLAKQLLQVHQNTYALIVSTESITENCYIGQDPSKFIINCLFRV...

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_018774`
TK1151 ID	TkA08G082490
OH-1004 ID	LXL04_018774
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	99.800
Protein coverage (%)	TK1151 98.294 / OH-1004 77.479 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

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Basic Information and Functional Annotation

Gene ID LXL04_018774

Location Chr04:18005839-18016286 (+)

Description Similar to KCS11: 3-ketoacyl-CoA synthase 11

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`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
`At1g04220`	Mediates the synthesis of VLCFAs from 22 to 26 carbons in length (e.g. C22, C24, C26).	Specific and differential inhibition of very-long-chain fatty acid elongases from Arabidopsis thaliana by different herbicides.2004 · DOI: 10.1073/pnas.0404600101 The DAISY gene from Arabidopsis encodes a fatty acid elongase condensing enzyme involved in the biosynthesis of aliphatic suberin in roots and the chalaza-micropyle region of seeds.2009 · DOI: 10.1111/j.1365-313x.2008.03674.x Two Arabidopsis 3-ketoacyl CoA synthase genes, KCS20 and KCS2/DAISY, are functionally redundant in cuticular wax and root suberin biosynthesis, but differentially controlled by osmotic stress.2009 · DOI: 10.1111/j.1365-313x.2009.03973.x
`At5g43760`	Mediates the synthesis of VLCFAs from 22 to 26 carbons in length (e.g. C22, C24, C26).	Specific and differential inhibition of very-long-chain fatty acid elongases from Arabidopsis thaliana by different herbicides.2004 · DOI: 10.1073/pnas.0404600101
`At1g19440`	3-ketoacyl-CoA synthase 4.	No verified direct reference in this release
`At4g34510`	Active on saturated acyl-CoAs up to C22.	Substrate specificity of Arabidopsis 3-ketoacyl-CoA synthases.2006 · DOI: 10.1016/j.bbrc.2006.05.162

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_018774 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006633 fatty acid biosynthetic process Biological Process

GO:0006970 response to osmotic stress Biological Process

GO:0009409 response to cold Biological Process

GO:0009416 response to light stimulus Biological Process

GO:0009611 response to wounding Biological Process

GO:0010345 suberin biosynthetic process Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0016020 membrane Cellular Component

GO:0009922 fatty acid elongase activity Molecular Function

KEGG gene cross-reference

ath:AT1G04220

ath:AT2G26640

ath:AT5G43760

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 reticulum0.574

Rank 1 · LXL04_018774 · OH-1004

Cell membrane0.165

Rank 2 · LXL04_018774 · OH-1004

Cytoplasm0.123

Rank 3 · LXL04_018774 · OH-1004

Lysosome / Vacuole0.096

Rank 4 · LXL04_018774 · OH-1004

Golgi apparatus0.067

Rank 5 · LXL04_018774 · 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_RppA65-353 aa

PF08541.17ACP_syn_III_C369-452 aa

PF02797.22Chal_sti_synt_C376-453 aa

PF08392.19FAE1_CUT1_RppA510-589 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018774	`PF08392.19`	FAE1_CUT1_RppA	65	353	1.4e-122	409.3
LXL04_018774	`PF08541.17`	ACP_syn_III_C	369	452	1.8e-13	51.2
LXL04_018774	`PF02797.22`	Chal_sti_synt_C	376	453	7.4e-08	33.3
LXL04_018774	`PF08392.19`	FAE1_CUT1_RppA	510	589	1.4e-122	409.3

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
`O48780`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 11	49.167%	Swiss-Prot	moderate database homology
`Q5XEP9`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 2	51.467%	Swiss-Prot	strong database homology
`Q9FG87`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 20	49.669%	Swiss-Prot	moderate database homology
`Q9LN49`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 4	49.091%	Swiss-Prot	moderate database homology
`O65677`	Arabidopsis thaliana	3-ketoacyl-CoA synthase 17	47.368%	Swiss-Prot	moderate database homology

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