TkA04G042690 | RubberDandelionOmics

Gene overview

TkA04G042690

Reference: TK1151 Chr: Chr04 Coordinates: 11460556-11461956 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1353 bp · TkA04G042690|TK1151|cDNA

ATGGATTATGTTTTGACCATAGTATATTGCTTTCCTCTCTTCTATCTCTTCTGCATTCTCCTCAATTTTTTTGAAAAAAGAAGGCATCAAAACTGTTACATACTCGATTACCAGCTCTACAAACCTTCCGATGACAGGAAACTCTGCACTGAATTTTCCGGAGACATTATCCGGAGGAACAAGAACTTGGGTCTCAACGAATACAAGTTCCTTCTCAAAGCCATCGTAAGTTCAGGCATTGGCGAAGAAACTTACGCCCC...

CDS

Download CDS FASTA

1353 bp · TkA04G042690|TK1151|CDS

ATGGATTATGTTTTGACCATAGTATATTGCTTTCCTCTCTTCTATCTCTTCTGCATTCTCCTCAATTTTTTTGAAAAAAGAAGGCATCAAAACTGTTACATACTCGATTACCAGCTCTACAAACCTTCCGATGACAGGAAACTCTGCACTGAATTTTCCGGAGACATTATCCGGAGGAACAAGAACTTGGGTCTCAACGAATACAAGTTCCTTCTCAAAGCCATCGTAAGTTCAGGCATTGGCGAAGAAACTTACGCCCC...

Protein

Download Protein FASTA

450 aa · TkA04G042690|TK1151|PROTEIN

MDYVLTIVYCFPLFYLFCILLNFFEKRRHQNCYILDYQLYKPSDDRKLCTEFSGDIIRRNKNLGLNEYKFLLKAIVSSGIGEETYAPKMMFEGREENPTHEDAINEMEEIFEDSIGKLFQRTGIRPESIDVVVVNVSMLTCMPSLSSRIVNRYRMRPDVKTYNLSGMGCSASLISINLVQSVFKSKKNQLALVVASECLTPNWYTGNDKSMILSNCLFRSGGCAMILTNKPSLAHRSMFKLKTMVRTHHGSKDEAYGCCL...

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	`TkA04G042690`
TK1151 ID	TkA04G042690
OH-1004 ID	LXL04_036477
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	89.500
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	TK1151 / GWHBCHF00000000

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA04G042690

Location Chr04:11460556-11461956 (-)

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
`At1g07720`	3-ketoacyl-CoA synthase 3.	No verified direct reference in this release
`At2g28630`	3-ketoacyl-CoA synthase 12.	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
`At2g46720`	Contributes to cuticular wax and suberin biosynthesis (By similarity).	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_036477 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

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:AT2G46720

ath:AT5G04530

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 reticulum0.787

Rank 1 · TkA04G042690 · TK1151

Cell membrane0.085

Rank 2 · TkA04G042690 · TK1151

Cytoplasm0.073

Rank 3 · TkA04G042690 · TK1151

Mitochondrion0.065

Rank 4 · TkA04G042690 · TK1151

Nucleus0.057

Rank 5 · TkA04G042690 · TK1151

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.

PF08392FAE1_CUT1_RppA26-307 aa

PF02797Chal_sti_synt_C105-125 aa

PF08541ACP_syn_III_C120-168 aa

PF00195Chal_sti_synt_N128-231 aa

PF08545ACP_syn_III168-230 aa

PF02797Chal_sti_synt_C269-284 aa

PF08541ACP_syn_III_C320-401 aa

PF02797Chal_sti_synt_C323-396 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G042690	`PF08392`	FAE1_CUT1_RppA	26	307	3.4e-114	381.8
TkA04G042690	`PF02797`	Chal_sti_synt_C	105	125	4.3e-08	34.0
TkA04G042690	`PF08541`	ACP_syn_III_C	120	168	8e-15	55.5
TkA04G042690	`PF00195`	Chal_sti_synt_N	128	231	0.078	13.1
TkA04G042690	`PF08545`	ACP_syn_III	168	230	0.01	16.5
TkA04G042690	`PF02797`	Chal_sti_synt_C	269	284	4.3e-08	34.0
TkA04G042690	`PF08541`	ACP_syn_III_C	320	401	8e-15	55.5
TkA04G042690	`PF02797`	Chal_sti_synt_C	323	396	4.3e-08	34.0

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
`Q9LQP8`	Arabidopsis thaliana	sp\|Q9LQP8\|KCS3_ARATH 3-ketoacyl-CoA synthase 3	63.600%	Swiss-Prot	High
`Q9SIB2`	Arabidopsis thaliana	sp\|Q9SIB2\|KCS12_ARATH 3-ketoacyl-CoA synthase 12	62.600%	Swiss-Prot	High
`Q9LZ72`	Arabidopsis thaliana	sp\|Q9LZ72\|KCS19_ARATH 3-ketoacyl-CoA synthase 19	52.400%	Swiss-Prot	High
`Q9MAM3`	Arabidopsis thaliana	sp\|Q9MAM3\|KCS1_ARATH 3-ketoacyl-CoA synthase 1	41.400%	Swiss-Prot	Medium
`Q9ZUZ0`	Arabidopsis thaliana	sp\|Q9ZUZ0\|KCS13_ARATH 3-ketoacyl-CoA synthase 13	41.200%	Swiss-Prot	Medium

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