TkA03G558490 | RubberDandelionOmics

Gene overview

TkA03G558490

Reference: TK1151 Chr: Chr03 Coordinates: 141411786-141412961 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1176 bp · TkA03G558490|TK1151|cDNA

ATGTCGTCATACGAATCACCGGTGCAAAAAACAGGGGATTCGCCGGAGAATTTAACCCCTAAATTTTACTTGGAAGATGATTTACTGGAAACAGACTCGTGTATTGATCCTCTGGTTCCTGGTCTTCCTGATGATATTGCGTTGATTTGTCTTCTCCGTCTCCCGGTCAAGTTTCATTCAGCTGGCCGGAGTGTTTGCCGGCGGTGGTATAATCTTTTTGGTGATAAAAATCGATTTTTTGCGGAAAGGAAGCTAATGGG...

CDS

Download CDS FASTA

1176 bp · TkA03G558490|TK1151|CDS

ATGTCGTCATACGAATCACCGGTGCAAAAAACAGGGGATTCGCCGGAGAATTTAACCCCTAAATTTTACTTGGAAGATGATTTACTGGAAACAGACTCGTGTATTGATCCTCTGGTTCCTGGTCTTCCTGATGATATTGCGTTGATTTGTCTTCTCCGTCTCCCGGTCAAGTTTCATTCAGCTGGCCGGAGTGTTTGCCGGCGGTGGTATAATCTTTTTGGTGATAAAAATCGATTTTTTGCGGAAAGGAAGCTAATGGG...

Protein

Download Protein FASTA

391 aa · TkA03G558490|TK1151|PROTEIN

MSSYESPVQKTGDSPENLTPKFYLEDDLLETDSCIDPLVPGLPDDIALICLLRLPVKFHSAGRSVCRRWYNLFGDKNRFFAERKLMGFRDPWMFVFSFHKRTGKIQWQVLDLVHLSWHTIPAMPCMDKVCPRGFRCISGSDNTSLFVCGGVTSDMDCPLNLVLKFEVKSNQWTVMKKMITPRSFFAGGVISGKVYVAGGNSGRQFDLNSAEVMDPDVGVWQPISDMGTNMACYDSAVLDGKLLVTEGWLWPFYNVPRGQV...

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	`TkA03G558490`
TK1151 ID	TkA03G558490
OH-1004 ID	LXL04_010957
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 98.737 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

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA03G558490

Location Chr03:141411786-141412961 (-)

Description Similar to At1g30090: F-box/kelch-repeat protein At1g30090

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g30090`	F-box/kelch-repeat protein At1g30090.	No verified direct reference in this release
`At2g24540`	Component of SCF (ASK-cullin-F-box) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins (By similarity).	No verified direct reference in this release
`At1g67480`	F-box/kelch-repeat protein At1g67480.	No verified direct reference in this release
`At1g27420`	Putative F-box/kelch-repeat protein At1g27420.	No verified direct reference in this release
`At1g55270`	F-box/kelch-repeat protein At1g55270.	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_010957 · 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:0006995 cellular response to nitrogen starvation Biological Process

GO:0009585 red, far-red light phototransduction Biological Process

GO:0010017 red or far-red light signaling pathway Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:2000762 regulation of phenylpropanoid metabolic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G22040

ath:AT1G30090

ath:AT1G55270

ath:AT1G67480

ath:AT2G24540

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.

Nucleus0.493

Rank 1 · TkA03G558490 · TK1151

Cytoplasm0.391

Rank 2 · TkA03G558490 · TK1151

Cell membrane0.096

Rank 3 · TkA03G558490 · TK1151

Plastid0.067

Rank 4 · TkA03G558490 · TK1151

Endoplasmic reticulum0.057

Rank 5 · TkA03G558490 · 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.

PF00646F-box41-79 aa

PF12937F-box-like41-73 aa

PF25210Kelch_FKB95107-124 aa

PF24681Kelch_KLHDC2_KLHL20_DRC7107-271 aa

PF13415Beta-prop_FBX42107-172 aa

PF01344Kelch_1109-124 aa

PF24996NANM110-225 aa

PF07646Kelch_2114-124 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA03G558490	`PF00646`	F-box	41	79	0.00017	22.1
TkA03G558490	`PF12937`	F-box-like	41	73	0.21	12.1
TkA03G558490	`PF25210`	Kelch_FKB95	107	124	1.5e-20	74.7
TkA03G558490	`PF24681`	Kelch_KLHDC2_KLHL20_DRC7	107	271	7.3e-13	49.0
TkA03G558490	`PF13415`	Beta-prop_FBX42	107	172	0.00048	20.5
TkA03G558490	`PF01344`	Kelch_1	109	124	2.1e-19	69.4
TkA03G558490	`PF24996`	NANM	110	225	0.0012	18.5
TkA03G558490	`PF07646`	Kelch_2	114	124	1.2e-07	32.0
TkA03G558490	`PF04942`	CC	121	140	0.033	15.0
TkA03G558490	`PF22955`	EGF2_RECK	124	137	0.19	12.1
TkA03G558490	`PF13964`	Beta-prop_Calicin	138	234	3.3e-09	36.9
TkA03G558490	`PF01344`	Kelch_1	140	178	2.1e-19	69.4
TkA03G558490	`PF24981`	Beta-prop_ATRN-LZTR1	140	219	1.1e-06	28.9
TkA03G558490	`PF07646`	Kelch_2	142	178	1.2e-07	32.0
TkA03G558490	`PF13415`	Beta-prop_FBX42	142	225	0.00048	20.5
TkA03G558490	`PF25210`	Kelch_FKB95	145	316	1.5e-20	74.7

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
`Q9C6Z0`	Arabidopsis thaliana	sp\|Q9C6Z0\|FBK17_ARATH F-box/kelch-repeat protein At1g30090	55.400%	Swiss-Prot	High
`Q8LAW2`	Arabidopsis thaliana	sp\|Q8LAW2\|AFR_ARATH F-box protein AFR	35.700%	Swiss-Prot	Medium
`Q9CAG8`	Arabidopsis thaliana	sp\|Q9CAG8\|FBK28_ARATH F-box/kelch-repeat protein At1g67480	29.000%	Swiss-Prot	Low
`Q9FZJ3`	Arabidopsis thaliana	sp\|Q9FZJ3\|FBK16_ARATH Putative F-box/kelch-repeat protein At1g27420	26.400%	Swiss-Prot	Low
`Q93W93`	Arabidopsis thaliana	sp\|Q93W93\|FBK22_ARATH F-box/kelch-repeat protein At1g55270	26.300%	Swiss-Prot	Low

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