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Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

TkA02G610360
Reference: TK1151 Chr: Chr02 Coordinates: 157477033-157479835 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1676 bp · TkA02G610360|TK1151|cDNA

TTTACCCTTAACATCCCCAATTTTGGTTCAAGAAATTACTAAACGAAGCAGTGCAATTGCAAAATGCCAGTTGGTTGTCTACTGTGAGGATGAAGTCTTCAGCTACAAACATACACTGACACACGCACGCTGACTGCCATTCTACGTGCGAGACAGAAGAAAGAAGAAATCAAAGTCACTGCGTTTGGAAGCGTGACTCGTAGCGAACGCCATGTTTTCACCCAACCAGCAGATGGCAGTACATGGGAAGCTGTTAAATG...

CDS

Download CDS FASTA

1215 bp · TkA02G610360|TK1151|CDS

ATGTTTTCACCCAACCAGCAGATGGCAGTACATGGGAAGCTGTTAAATGTACAAGTTCCTTCACCAACCAACTATGGTGGTCAGAATGGGTCAGCATCACCTAATGTTGGTAAGGCCATGGATGCATTCTCTCAGGCAGAATCACTTGTCTCTTCTTCAAAGAAACTTGAGAATGAAGTGGTATTGCTAGGACAGAATATAAAAGATCATGAAGAAAACATTGAATATCTAAAGACTCGTATAAGCAGCTTGGATGACCA...

Protein

Download Protein FASTA

404 aa · TkA02G610360|TK1151|PROTEIN

MFSPNQQMAVHGKLLNVQVPSPTNYGGQNGSASPNVGKAMDAFSQAESLVSSSKKLENEVVLLGQNIKDHEENIEYLKTRISSLDDQITDIQVTLGKSQSSNSSTHTTLTEDKDLSQHIIQQHQKSAGAIVSKFKSHEDPTCIKDVLGVVATLGKLYDDNLSRIVSEYLGLDTMLALVCMTYDGVKALETYFGLYGIERRLEVICLENMRPYVGEVMGDDPQRRLALVKPKLPNGKSPLGFLGFAVNMIHIDIPHLLPST...

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.

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ID Mapping

Input IDTkA02G610360
TK1151 IDTkA02G610360
OH-1004 IDLXL04_011821
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)99.700
Protein coverage (%)TK1151 98.267 / 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 versionTK1151 / 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 IDTkA02G610360
LocationChr02:157477033-157479835 (-)
DescriptionSimilar to DMS3: Protein DEFECTIVE IN MERISTEM SILENCING 3
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g49250 Component of the RNA-directed DNA methylation (RdDM) machinery, probably by facilitating an RNAi-mediated epigenetic modification involving secondary siRNAs and spreading of DNA methylation, thus leading to gene silencing.
A structural-maintenance-of-chromosomes hinge domain-containing protein is required for RNA-directed DNA methylation.2008 · DOI: 10.1038/ng.119
RNA polymerase V transcription guides ARGONAUTE4 to chromatin.2009 · DOI: 10.1038/ng.365
IDN1 and IDN2 are required for de novo DNA methylation in Arabidopsis thaliana.2009 · DOI: 10.1038/nsmb.1690
RNA polymerase V-dependent small RNAs in Arabidopsis originate from small, intergenic loci including most SINE repeats.2012 · DOI: 10.4161/epi.20290
At5g24280 Contributes to DNA double-strand break (DSB) repair via somatic homologous recombination.
GMI1, a structural-maintenance-of-chromosomes-hinge domain-containing protein, is involved in somatic homologous recombination in Arabidopsis.2011 · DOI: 10.1111/j.1365-313x.2011.04604.x

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_011821 · 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:0000724 double-strand break repair via homologous recombination Biological Process
GO:0031047 regulatory ncRNA-mediated gene silencing Biological Process
GO:0080188 gene silencing by siRNA-directed DNA methylation Biological Process
GO:0000419 RNA polymerase V complex Cellular Component
GO:0005634 nucleus Cellular Component
GO:0042803 protein homodimerization activity Molecular Function
KEGG gene cross-reference
ath:AT3G49250
ath:AT5G24280
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.

Nucleus0.758
Rank 1 · TkA02G610360 · TK1151
Cytoplasm0.311
Rank 2 · TkA02G610360 · TK1151
Cell membrane0.029
Rank 3 · TkA02G610360 · TK1151
Mitochondrion0.028
Rank 4 · TkA02G610360 · TK1151
Endoplasmic reticulum0.019
Rank 5 · TkA02G610360 · 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.

PF30677CCDC18_1st33-125 aa
PF25994HH_AprE33-92 aa
PF25762HAUS140-115 aa
PF10473CENP-F_leu_zip43-124 aa
PF15294Leu_zip44-120 aa
PF07926TPR_MLP1_244-117 aa
PF28422CCDC8945-123 aa
PF10018Med445-106 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA02G610360PF30677CCDC18_1st331250.1611.9
TkA02G610360PF25994HH_AprE33920.2512.1
TkA02G610360PF25762HAUS1401150.009816.4
TkA02G610360PF10473CENP-F_leu_zip431241.29.9
TkA02G610360PF15294Leu_zip441200.1112.8
TkA02G610360PF07926TPR_MLP1_2441171.110.1
TkA02G610360PF28422CCDC89451230.009816.0
TkA02G610360PF10018Med4451060.04514.2
TkA02G610360PF18504Csm1_N45930.09113.8
TkA02G610360PF28420CCDC122451240.09513.1
TkA02G610360PF25450Rab11-FIP3451116.27.8
TkA02G610360PF23203KIF21A461070.2112.1
TkA02G610360PF07889DUF166447920.3511.7
TkA02G610360PF27720SSNA1471242.69.0
TkA02G610360PF31006DYAD_CC471174.08.5
TkA02G610360PF08702Fib_alpha49950.03115.2

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
Q94A79Arabidopsis thalianasp|Q94A79|DMS3_ARATH Protein DEFECTIVE IN MERISTEM SILENCING 345.300%Swiss-ProtMedium
F4KFS5Arabidopsis thalianasp|F4KFS5|GMI1_ARATH Structural maintenance of chromosomes flexible hinge domain-containing protein GMI141.700%Swiss-ProtLow

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