TkA02G408960 | RubberDandelionOmics

Gene overview

TkA02G408960

Reference: TK1151 Chr: Chr02 Coordinates: 104036077-104038873 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2560 bp · TkA02G408960|TK1151|cDNA

CCACAGTCCAAAAAGCAATGTATTTTCACACAAAAGTTGTTGTGTTTCATTTCTAGTAATTGTTTCTCTCCTGTTGCCGGGTGAATCGCCGTTTCAGCACCGTCAAGGGACACAGCTGATGTCGCCGGTGGTAACATCCAGCAAGCCACCCCTTTCTTAACCCTAAATATCCCTAAACTCGAACCTAAAGACGAACCTTTCGACGACCCACCCCATCCCCACCATTCTCATACCAATTATGCAAACCCTAACCTTAATTT...

CDS

Download CDS FASTA

2004 bp · TkA02G408960|TK1151|CDS

ATGAGTTCTTTGATTGACCTAAATCTTTATCCTGATTCTCCTGTCAGGGACACAGCTGATGTCGCCGGTGGTAACATCCAGCAAGCCACCCCTTTCTTAACCCTAAATATCCCTAAACTCGAACCTAAAGACGAACCTTTCGACGACCCACCCCATCCCCACCATTCTCATACCAATTATGCAAACCCTAACCTTAATTTCACTCTCAACACACAGCCCGACACATCACAACCTGTCGCGCAACCCGCTGTTGGTGAAAA...

Protein

Download Protein FASTA

667 aa · TkA02G408960|TK1151|PROTEIN

MSSLIDLNLYPDSPVRDTADVAGGNIQQATPFLTLNIPKLEPKDEPFDDPPHPHHSHTNYANPNLNFTLNTQPDTSQPVAQPAVGENDVYSEFSRIQEMFRTAFSNNTDKYDAPGFIDPDAQAIVPVPEEKHLSAVADSSRRKYQQRSGELVRVTNLGVEDERYFRDVVRKTRMMYDSLRVFVTMEDEKRRNNVFGRIPRARGDLKASSVMKDRGLWLNRDKRIVGAIPGVYVGDIFFFRMEICVVGMHGLPQAGIDYLT...

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	`TkA02G408960`
TK1151 ID	TkA02G408960
OH-1004 ID	LXL04_014603
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	98.000
Protein coverage (%)	TK1151 96.402 / OH-1004 94.282 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 TkA02G408960

Location Chr02:104036077-104038873 (-)

Description Similar to SUVH9: Histone-lysine N-methyltransferase family member SUVH9

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g13460`	Histone methyltransferase family member that plays a role in gene silencing.	SRA-domain proteins required for DRM2-mediated de novo DNA methylation.2008 · DOI: 10.1371/journal.pgen.1000280 SRA- and SET-domain-containing proteins link RNA polymerase V occupancy to DNA methylation.2014 · DOI: 10.1038/nature12931 Two Components of the RNA-Directed DNA Methylation Pathway Associate with MORC6 and Silence Loci Targeted by MORC6 in Arabidopsis.2016 · DOI: 10.1371/journal.pgen.1006026
`At2g33290`	Histone methyltransferase family member that plays a central role in gene silencing.	Pivotal role of AtSUVH2 in heterochromatic histone methylation and gene silencing in Arabidopsis.2005 · DOI: 10.1038/sj.emboj.7600604 SRA-domain proteins required for DRM2-mediated de novo DNA methylation.2008 · DOI: 10.1371/journal.pgen.1000280 SRA- and SET-domain-containing proteins link RNA polymerase V occupancy to DNA methylation.2014 · DOI: 10.1038/nature12931 Two Components of the RNA-Directed DNA Methylation Pathway Associate with MORC6 and Silence Loci Targeted by MORC6 in Arabidopsis.2016 · DOI: 10.1371/journal.pgen.1006026
`At5g04940`	Histone methyltransferase.	Pivotal role of AtSUVH2 in heterochromatic histone methylation and gene silencing in Arabidopsis.2005 · DOI: 10.1038/sj.emboj.7600604
`At1g73100`	Histone methyltransferase.	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_014603 · 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:0009294 DNA-mediated transformation Biological Process

GO:0032259 methylation Biological Process

GO:0040029 epigenetic regulation of gene expression Biological Process

GO:0080188 gene silencing by siRNA-directed DNA methylation Biological Process

GO:0000775 chromosome, centromeric region Cellular Component

GO:0000792 heterochromatin Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005694 chromosome Cellular Component

GO:0001228 DNA-binding transcription activator activity, RNA polymerase II-specific Molecular Function

GO:0003690 double-stranded DNA binding Molecular Function

GO:0008168 methyltransferase activity Molecular Function

GO:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G73100

ath:AT2G33290

ath:AT4G13460

ath:AT5G04940

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.

Nucleus0.916

Rank 1 · TkA02G408960 · TK1151

Cytoplasm0.105

Rank 2 · TkA02G408960 · TK1151

Cell membrane0.035

Rank 3 · TkA02G408960 · TK1151

Plastid0.025

Rank 4 · TkA02G408960 · TK1151

Endoplasmic reticulum0.019

Rank 5 · TkA02G408960 · 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.

PF02182SAD_SRA225-377 aa

PF05033Pre-SET408-503 aa

PF00856SET522-654 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA02G408960	`PF02182`	SAD_SRA	225	377	8.3e-52	175.6
TkA02G408960	`PF05033`	Pre-SET	408	503	1.6e-22	80.7
TkA02G408960	`PF00856`	SET	522	654	5.2e-13	50.1

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
`Q9T0G7`	Arabidopsis thaliana	sp\|Q9T0G7\|SUVH9_ARATH Histone-lysine N-methyltransferase family member SUVH9	57.100%	Swiss-Prot	High
`O22781`	Arabidopsis thaliana	sp\|O22781\|SUVH2_ARATH Histone-lysine N-methyltransferase family member SUVH2	52.600%	Swiss-Prot	High
`Q9FF80`	Arabidopsis thaliana	sp\|Q9FF80\|SUVH1_ARATH Histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH1	40.700%	Swiss-Prot	Medium
`Q9C5P4`	Arabidopsis thaliana	sp\|Q9C5P4\|SUVH3_ARATH Histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH3	39.700%	Swiss-Prot	Medium

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