TkA03G554670 | RubberDandelionOmics

Gene overview

TkA03G554670

Reference: TK1151 Chr: Chr03 Coordinates: 140434957-140436387 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1106 bp · TkA03G554670|TK1151|cDNA

TTGATTCCCCAATGTATAATAACAAAGCATCACTATCTCCTACTTCAATTCAGTATCCAACAGAACTCCCTGAATTCTGACAGATGACCGGAGAAGGAAAGGTGGTTTGTGTTACAGGGGCGTCGGGATACATAGCTTCATGGCTCGTTAAGCTCCTACTTCAGCGTGGCTACACTGTCCATGCTACTGTCCGCTCTCTCGATGATCCGAAGAAGACACAACACCTACGTGCCCTTGATGGAGCGAAGGAAAGGCTGTTG...

CDS

Download CDS FASTA

987 bp · TkA03G554670|TK1151|CDS

ATGACCGGAGAAGGAAAGGTGGTTTGTGTTACAGGGGCGTCGGGATACATAGCTTCATGGCTCGTTAAGCTCCTACTTCAGCGTGGCTACACTGTCCATGCTACTGTCCGCTCTCTCGATGATCCGAAGAAGACACAACACCTACGTGCCCTTGATGGAGCGAAGGAAAGGCTGTTGTTATTTGAAGCTAACTTGACTGAAGAAGGTTCTTTCGATTCCGCAGTTAATGGCTGCCAATGTGTGTTTCATATGGCATCCCC...

Protein

Download Protein FASTA

328 aa · TkA03G554670|TK1151|PROTEIN

MTGEGKVVCVTGASGYIASWLVKLLLQRGYTVHATVRSLDDPKKTQHLRALDGAKERLLLFEANLTEEGSFDSAVNGCQCVFHMASPVIPAVSISDPKSQYLDPAVNGTLNVLKSAGKVSSLKRVVLTSSMSAVLHGAKPREFGAVVDETWFSDPKTCEQKKLWYALSKTLAENAGVKFCKENGLDLVVMNPGFVIGPLLQPTLNVTSQWVMGLIETGTEIFPDGINRIVDVRDVAIAHVLAFENPKANGRYCVVGAVVF...

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	`TkA03G554670`
TK1151 ID	TkA03G554670
OH-1004 ID	LXL04_010894
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	100.000
Protein coverage (%)	TK1151 85.366 / OH-1004 99.291 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 TkA03G554670

Location Chr03:140434957-140436387 (-)

Description Similar to TKPR1: Tetraketide alpha-pyrone reductase 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g15950`	Involved in the latter stages of lignin biosynthesis.	Cloning and characterization of irregular xylem4 (irx4): a severely lignin-deficient mutant of Arabidopsis.2001 · DOI: 10.1046/j.1365-313x.2001.01021.x Reassessment of effects on lignification and vascular development in the irx4 Arabidopsis mutant.2005 · DOI: 10.1016/j.phytochem.2004.12.016 Redirection of the phenylpropanoid pathway to feruloyl malate in Arabidopsis mutants deficient for cinnamoyl-CoA reductase 1.2008 · DOI: 10.1007/s00425-007-0669-x The simultaneous repression of CCR and CAD, two enzymes of the lignin biosynthetic pathway, results in sterility and dwarfism in Arabidopsis thaliana.2011 · DOI: 10.1093/mp/ssq045
`At4g35420`	Involved in the biosynthesis of hydroxylated tetraketide compounds that serve as sporopollenin precursors (the main constituents of exine).	An anther-specific dihydroflavonol 4-reductase-like gene (DRL1) is essential for male fertility in Arabidopsis.2009 · DOI: 10.1111/j.1469-8137.2008.02692.x Analysis of TETRAKETIDE α-PYRONE REDUCTASE function in Arabidopsis thaliana reveals a previously unknown, but conserved, biochemical pathway in sporopollenin monomer biosynthesis.2010 · DOI: 10.1105/tpc.110.080036

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_010894 · 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:0007623 circadian rhythm Biological Process

GO:0009409 response to cold Biological Process

GO:0009555 pollen development Biological Process

GO:0009699 phenylpropanoid biosynthetic process Biological Process

GO:0009809 lignin biosynthetic process Biological Process

GO:0010584 pollen exine formation Biological Process

GO:0010597 green leaf volatile biosynthetic process Biological Process

GO:0048316 seed development Biological Process

GO:0080110 sporopollenin biosynthetic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

KEGG gene cross-reference

ath:AT1G15950

ath:AT4G35420

mtr:11427940

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.

Cytoplasm0.807

Rank 1 · TkA03G554670 · TK1151

Nucleus0.264

Rank 2 · TkA03G554670 · TK1151

Endoplasmic reticulum0.074

Rank 3 · TkA03G554670 · TK1151

Cell membrane0.054

Rank 4 · TkA03G554670 · TK1151

Mitochondrion0.052

Rank 5 · TkA03G554670 · 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.

PF05368NmrA6-86 aa

PF00106adh_short6-79 aa

PF01370Epimerase8-250 aa

PF08659KR8-139 aa

PF010733Beta_HSD10-245 aa

PF16363GDP_Man_Dehyd10-192 aa

PF07993NAD_binding_410-206 aa

PF13460NAD_binding_1012-150 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA03G554670	`PF05368`	NmrA	6	86	1.8e-08	35.0
TkA03G554670	`PF00106`	adh_short	6	79	0.00041	20.6
TkA03G554670	`PF01370`	Epimerase	8	250	8.5e-23	81.7
TkA03G554670	`PF08659`	KR	8	139	0.00087	20.0
TkA03G554670	`PF01073`	3Beta_HSD	10	245	1e-16	61.5
TkA03G554670	`PF16363`	GDP_Man_Dehyd	10	192	1.3e-16	61.7
TkA03G554670	`PF07993`	NAD_binding_4	10	206	5.9e-14	52.6
TkA03G554670	`PF13460`	NAD_binding_10	12	150	1.7e-09	38.5

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
`Q9S9N9`	Arabidopsis thaliana	sp\|Q9S9N9\|CCR1_ARATH Cinnamoyl-CoA reductase 1	44.000%	Swiss-Prot	Medium
`Q500U8`	Arabidopsis thaliana	sp\|Q500U8\|TKPR1_ARATH Tetraketide alpha-pyrone reductase 1	45.600%	Swiss-Prot	Medium

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