TkA08G115370 | RubberDandelionOmics

Gene overview

TkA08G115370

Reference: TK1151 Chr: Chr08 Coordinates: 30053222-30056109 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

832 bp · TkA08G115370|TK1151|cDNA

GTTATTAATTGTGAATTTCAGGATTCGTTGAAAGCTCTGCAAGATAAGCAACAACGGACTGTGTATCGATTGACACTTGTCAAAGGATGGAACACGGAAGAGGTGAATGCGTATTCTAGTCTATTTGCGATCGGAAACCCTGATTTTGTTGAAATCAAAGGCGTTACATATTGTGGAACGTCGGCTACATCAAAATTGACGATGGAAAACGTGCCATGGCATGCTGATGTGAAGGCTTTTTCAGAAGCGTTAGCTGAAAA...

CDS

Download CDS FASTA

1977 bp · TkA08G115370|TK1151|CDS

ATGTCCTCTACTGGCGCCGCCGCCACTATATCCACCACGACTCTCACGACACATCTCACTATCCTCGCCTTCCTCTCCGCCACCACCGTCTACTGCTTCTATAAGTCCCGCCGCCTCCGCCACCTTAAACTATCGTCCCCTTCCTCAAACCCTAATCTCTCCTCTGATACTAGAAAAGGAAAACTCTTCTTCATCTCTCAAACAGGCACCTCTAAGACTCTAGCTCAACGTCTCTTCAACCAACTGACCTCCAGTAACCT...

Protein

Download Protein FASTA

658 aa · TkA08G115370|TK1151|PROTEIN

MSSTGAAATISTTTLTTHLTILAFLSATTVYCFYKSRRLRHLKLSSPSSNPNLSSDTRKGKLFFISQTGTSKTLAQRLFNQLTSSNLPFDLVDPNVYEPEDLHQENLVLIIASTWEDGNPPSNGVFLSNWLSESAEDFRVGSLLLSKCKFAVFGVGSRAYGDNFNAVGRGISTKMRSLGASEILPLSEGDVDEGELDKAFGNWSKEVIKVLKAGELRGNVSELNGDENGYEMSDGSDYEDDDYEDEENETESDIVDLEDI...

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	`TkA08G115370`
TK1151 ID	TkA08G115370
OH-1004 ID	LXL04_031592
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	95.200
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

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

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Basic Information and Functional Annotation

Gene ID TkA08G115370

Location Chr08:30053222-30056109 (-)

Description Similar to TYW1: S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g75200`	Probable component of the wybutosine biosynthesis pathway.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0775300`	Probable component of the wybutosine biosynthesis pathway.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_031592 · 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:0031591 wybutosine biosynthetic process Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0010181 FMN binding Molecular Function

GO:0046872 metal ion binding Molecular Function

GO:0051539 4 iron, 4 sulfur cluster binding Molecular Function

GO:0102521 tRNA-4-demethylwyosine synthase activity Molecular Function

KEGG gene cross-reference

ath:AT1G75200

dosa:Os03g0775300

hsa:55253

pon:100171721

xla:735035

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.

Mitochondrion0.263

Rank 1 · TkA08G115370 · TK1151

Plastid0.178

Rank 2 · TkA08G115370 · TK1151

Cytoplasm0.164

Rank 3 · TkA08G115370 · TK1151

Endoplasmic reticulum0.154

Rank 4 · TkA08G115370 · TK1151

Nucleus0.147

Rank 5 · TkA08G115370 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF00258Flavodoxin_162-203 aa

PF12724Flavodoxin_563-121 aa

PF19238Radical_SAM_2343-358 aa

PF04055Radical_SAM344-516 aa

PF19238Radical_SAM_2449-514 aa

PF08608Wyosine_form525-588 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA08G115370	`PF00258`	Flavodoxin_1	62	203	1.1e-24	87.9
TkA08G115370	`PF12724`	Flavodoxin_5	63	121	0.2	12.7
TkA08G115370	`PF19238`	Radical_SAM_2	343	358	0.073	13.5
TkA08G115370	`PF04055`	Radical_SAM	344	516	3.5e-14	54.0
TkA08G115370	`PF19238`	Radical_SAM_2	449	514	0.073	13.5
TkA08G115370	`PF08608`	Wyosine_form	525	588	2.2e-25	89.4

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
`Q8RXN5`	Arabidopsis thaliana	sp\|Q8RXN5\|TYW1_ARATH S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase	73.000%	Swiss-Prot	High
`Q8H8N3`	Oryza sativa subsp. japonica	sp\|Q8H8N3\|TYW1_ORYSJ S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase	67.700%	Swiss-Prot	High

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