TkA01G129770 | RubberDandelionOmics

Gene overview

TkA01G129770

Reference: TK1151 Chr: Chr01 Coordinates: 32770849-32772422 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1066 bp · TkA01G129770|TK1151|cDNA

TAAGCCCCGGCCCAACTAAACAGGAAGAACTAAGAAGACGTCGAGCGACGACTTGAGCGCAAGAGCATCACCGTTTCCGCAGTTTTTACATAGCAGAGACCATCTCCAGTTCAGTTGCAGATGTTGCGATGTTATCCGATTTCGGGCATGTTCCACCAAAAATCTACAGCAAGATGGAGCAAGAGTTTGTCTGTTTCCCTTCTCTCCCCAATTTCTTCTACTACTTTCCACTCCCAATCAATCAAATCCAGCGTTCTTCC...

CDS

Download CDS FASTA

783 bp · TkA01G129770|TK1151|CDS

ATGTTGCGATGTTATCCGATTTCGGGCATGTTCCACCAAAAATCTACAGCAAGATGGAGCAAGAGTTTGTCTGTTTCCCTTCTCTCCCCAATTTCTTCTACTACTTTCCACTCCCAATCAATCAAATCCAGCGTTCTTCCTACGAACCGGGACTCTCCTCTGACCGGTCTAGAGTCCGTTATGGTGGACTACATATTCGGGAAGAAGAAGGCCACAGAAGTTGCTCACTCTGTTTGGAAACACGTTATCCAAAAAGGGGA...

Protein

Download Protein FASTA

260 aa · TkA01G129770|TK1151|PROTEIN

MLRCYPISGMFHQKSTARWSKSLSVSLLSPISSTTFHSQSIKSSVLPTNRDSPLTGLESVMVDYIFGKKKATEVAHSVWKHVIQKGDTVVDATCGNGHDTLAMVNMVSETDKSHGGHVCAMDIQETALKNTMSLLDASLHPNQKEIVKLFATCHSEIEQVVPKGATVRVVAFNLGYLPGGDKTVITKPETTLLGMMAASRVVISGGVISMLVYVGHPGGMDEYEKVETFACGLAVDAWICCKLQMLNRPLAPVLFLLCKR

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	`TkA01G129770`
TK1151 ID	TkA01G129770
OH-1004 ID	LXL04_004638
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.600
Protein coverage (%)	TK1151 100.000 / OH-1004 89.655 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 TkA01G129770

Location Chr01:32770849-32772422 (-)

Description Similar to ytqB: Putative rRNA methylase YtqB (Bacillus subtilis (strain 168)

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g16445`	Involved in the biosynthesis of 5-methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os05g0511700`	Involved in the biosynthesis of 5-methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_004638 · 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:0008033 tRNA processing Biological Process

GO:0032259 methylation Biological Process

GO:0009507 chloroplast Cellular Component

GO:0003729 mRNA binding Molecular Function

GO:0004808 tRNA (5-methylaminomethyl-2-thiouridylate)(34)-methyltransferase activity Molecular Function

KEGG gene cross-reference

ath:AT1G16445

bsu:BSU30490

dosa:Os05g0511700

sao:SAOUHSC_01878

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.

Mitochondrion0.884

Rank 1 · TkA01G129770 · TK1151

Cytoplasm0.088

Rank 2 · TkA01G129770 · TK1151

Plastid0.069

Rank 3 · TkA01G129770 · TK1151

Nucleus0.061

Rank 4 · TkA01G129770 · TK1151

Cell membrane0.021

Rank 5 · TkA01G129770 · 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.

PF10017Methyltransf_3371-172 aa

PF13679Methyltransf_3276-136 aa

PF01209Ubie_methyltran76-131 aa

PF13847Methyltransf_3184-130 aa

PF01739CheR87-133 aa

PF13649Methyltransf_2589-135 aa

PF06962rRNA_methylase118-258 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G129770	`PF10017`	Methyltransf_33	71	172	0.045	13.5
TkA01G129770	`PF13679`	Methyltransf_32	76	136	0.00045	20.9
TkA01G129770	`PF01209`	Ubie_methyltran	76	131	0.12	12.4
TkA01G129770	`PF13847`	Methyltransf_31	84	130	0.00062	20.3
TkA01G129770	`PF01739`	CheR	87	133	0.051	13.7
TkA01G129770	`PF13649`	Methyltransf_25	89	135	0.19	13.1
TkA01G129770	`PF06962`	rRNA_methylase	118	258	7.2e-38	130.3

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
`Q8GUP2`	Arabidopsis thaliana	sp\|Q8GUP2\|MNMM_ARATH tRNA (mnm(5)s(2)U34)-methyltransferase, chloroplastic	59.900%	Swiss-Prot	High
`Q0DGU2`	Oryza sativa subsp. japonica	sp\|Q0DGU2\|MNMM_ORYSJ tRNA (mnm(5)s(2)U34)-methyltransferase, chloroplastic	57.000%	Swiss-Prot	High

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