TkA01G370420 | RubberDandelionOmics

Gene overview

TkA01G370420

Reference: TK1151 Chr: Chr01 Coordinates: 92300156-92309779 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

4198 bp · TkA01G370420|TK1151|cDNA

TCGTCGCATGATCGCATCGCATCGCGGACATAGATTTATGAAGTAGACCTATTTTTAACGTTCAGTGCCCGACTGCCCGGCCGTTGGTGCCAATTGTTTGGGAAACCCGCCAAGTAGAGTTCAATAAGCAAAAATCCCTCTTCTGAATCTACAACAACCCCCACTGTTTTTAAAAACCCTAATTTCATCTTCTCCTGTATACAAACGTTTTCCTCCCCTCGATTCTCAAGAGAAAGCCTTTTCTTTTTTATGGCGATAAA...

CDS

Download CDS FASTA

3366 bp · TkA01G370420|TK1151|CDS

ATGACAACTGGCGGTGTGAAGTCAAGCGATGATGATAACAAGTCCCCAGAAGAACCAGATGAAGGTATGGTTGATGCCGAAACTGCTTCTGCTACTCCTGATCAAGAAGGTAACGTTACCGCTGAAGTAATAAATAGCAATGAGGCCAAAAAAAAGAGTGGGAGAGGCAGAAGTACCAGGAATGTCGATGTTAATTATGCCAATCTTTACGACTTTGATTTTAAAAGTCTGGTTTCAGGCTCTAAAAAGAGGGCTGGTTC...

Protein

Download Protein FASTA

1121 aa · TkA01G370420|TK1151|PROTEIN

MTTGGVKSSDDDNKSPEEPDEGMVDAETASATPDQEGNVTAEVINSNEAKKKSGRGRSTRNVDVNYANLYDFDFKSLVSGSKKRAGSKPKLKRKVPDDNRSQKASGSSTNYCPRPRCAARGMVPDENQGNLVYVQSAMCHQCQRNDKGHVVRCQKCTTKRYCVPCMTKWYPNMTEEMFAESCPVCLDKCNCRGCLRDVHPKVKQKINFEPDGDQKVRYSVYILHVLLPVLKRLNQEQMKEKTIEAEIQGCSLSDVRLKKA...

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	`TkA01G370420`
TK1151 ID	TkA01G370420
OH-1004 ID	LXL04_003351
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	94.000
Protein coverage (%)	TK1151 99.822 / OH-1004 91.095 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 TkA01G370420

Location Chr01:92300156-92309779 (+)

Description Similar to JMJ25: Lysine-specific demethylase JMJ25

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g07610`	Histone demethylase that demethylates 'Lys-9' (H3K9me) of histone H3 with a specific activity for H3K9me2 and H3K9me1.	Control of genic DNA methylation by a jmjC domain-containing protein in Arabidopsis thaliana.2008 · DOI: 10.1126/science.1150987 An Arabidopsis jmjC domain protein protects transcribed genes from DNA methylation at CHG sites.2009 · DOI: 10.1038/emboj.2009.59 Autocatalytic differentiation of epigenetic modifications within the Arabidopsis genome.2010 · DOI: 10.1038/emboj.2010.227 DNA methylation in an intron of the IBM1 histone demethylase gene stabilizes chromatin modification patterns.2012 · DOI: 10.1038/emboj.2012.141 IBM1, a JmjC domain-containing histone demethylase, is involved in the regulation of RNA-directed DNA methylation through the epigenetic control of RDR2 and DCL3 expression in Arabidopsis.2012 · DOI: 10.1093/nar/gks647 SHOOT GROWTH1 maintains Arabidopsis epigenomes by regulating IBM1.2014 · DOI: 10.1371/journal.pone.0084687 Demethylation of ERECTA receptor genes by IBM1 histone demethylase affects stomatal development.2016 · DOI: 10.1242/dev.129932 Contrasting epigenetic control of transgenes and endogenous genes promotes post-transcriptional transgene silencing in Arabidopsis.2021 · DOI: 10.1038/s41467-021-22995-3 The arabidopsis GyraseB3 contributes to transposon silencing by promoting histone deacetylation.2025 · DOI: 10.1093/nar/gkaf985
`At1g11950`	May function as histone H3 lysine demethylase and be involved in regulation of gene expression.	No verified direct reference in this release
`At1g62310`	May function as histone H3 lysine demethylase and be involved in regulation of gene expression.	No verified direct reference in this release
`At4g00990`	Histone demethylase that demethylates 'Lys-9' (H3K9me) of histone H3 with a specific activity for H3K9me1 and H3K9me2.	JMJ27, an Arabidopsis H3K9 histone demethylase, modulates defense against Pseudomonas syringae and flowering time.2017 · DOI: 10.1111/tpj.13623 JMJ27-mediated histone H3K9 demethylation positively regulates drought-stress responses in Arabidopsis.2021 · DOI: 10.1111/nph.17593
`At1g09060`	May bind histone H3 but appears to lack demethylase activity because it cannot bind Fe²⁺.	JMJ24 binds to RDR2 and is required for the basal level transcription of silenced loci in Arabidopsis.2015 · DOI: 10.1111/tpj.12924 JMJ24 targets CHROMOMETHYLASE3 for proteasomal degradation in Arabidopsis.2016 · DOI: 10.1101/gad.274647.115 A JUMONJI Protein with E3 Ligase and Histone H3 Binding Activities Affects Transposon Silencing in Arabidopsis.2016 · DOI: 10.1104/pp.15.01688

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_003351 · 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:0006351 DNA-templated transcription Biological Process

GO:0006357 regulation of transcription by RNA polymerase II Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0009617 response to bacterium Biological Process

GO:0040029 epigenetic regulation of gene expression Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0090333 regulation of stomatal closure Biological Process

GO:1902584 positive regulation of response to water deprivation Biological Process

GO:2000028 regulation of photoperiodism, flowering Biological Process

GO:2000039 regulation of trichome morphogenesis Biological Process

GO:0000118 histone deacetylase complex Cellular Component

GO:0000785 chromatin Cellular Component

KEGG gene cross-reference

ath:AT1G11950

ath:AT1G62310

ath:AT4G00990

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.

Nucleus0.921

Rank 1 · TkA01G370420 · TK1151

Cytoplasm0.118

Rank 2 · TkA01G370420 · TK1151

Cell membrane0.046

Rank 3 · TkA01G370420 · TK1151

Endoplasmic reticulum0.020

Rank 4 · TkA01G370420 · TK1151

Mitochondrion0.014

Rank 5 · TkA01G370420 · 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.

PF02373JmjC127-144 aa

PF08007JmjC_2128-148 aa

PF28666DD3_cupredoxin438-462 aa

PF28666DD3_cupredoxin618-697 aa

PF02373JmjC767-866 aa

PF08007JmjC_2834-869 aa

PF07883Cupin_2840-857 aa

PF07883Cupin_2998-1010 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G370420	`PF02373`	JmjC	127	144	6.3e-16	59.6
TkA01G370420	`PF08007`	JmjC_2	128	148	0.043	14.1
TkA01G370420	`PF28666`	DD3_cupredoxin	438	462	0.65	10.9
TkA01G370420	`PF28666`	DD3_cupredoxin	618	697	0.65	10.9
TkA01G370420	`PF02373`	JmjC	767	866	6.3e-16	59.6
TkA01G370420	`PF08007`	JmjC_2	834	869	0.043	14.1
TkA01G370420	`PF07883`	Cupin_2	840	857	0.025	15.0
TkA01G370420	`PF07883`	Cupin_2	998	1010	0.025	15.0

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
`Q9SSE9`	Arabidopsis thaliana	sp\|Q9SSE9\|JMJ25_ARATH Lysine-specific demethylase JMJ25	43.300%	Swiss-Prot	Medium
`C0SUU8`	Arabidopsis thaliana	sp\|C0SUU8\|JMJ26_ARATH Lysine-specific demethylase JMJ26	41.900%	Swiss-Prot	Medium
`C0SV12`	Arabidopsis thaliana	sp\|C0SV12\|JMJ29_ARATH Lysine-specific demethylase JMJ29	42.400%	Swiss-Prot	Medium
`Q8VYB9`	Arabidopsis thaliana	sp\|Q8VYB9\|JMJ27_ARATH Lysine-specific demethylase JMJ27	43.000%	Swiss-Prot	Medium
`F4HZD1`	Arabidopsis thaliana	sp\|F4HZD1\|JMJ24_ARATH E3 ubiquitin-protein ligase JMJ24	35.400%	Swiss-Prot	Medium

JBrowse

View in Genome Browser

Gene Card