TkA04G154390 | RubberDandelionOmics

Gene overview

TkA04G154390

Reference: TK1151 Chr: Chr04 Coordinates: 39938695-39941660 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1779 bp · TkA04G154390|TK1151|cDNA

GGTTATCGACATGTTACGGTGGGGCAGCGGAGCATGTAACCAGAGCCCTACATCGGTTCCCAAAGCAAGCCACATCATTTCTTCCCCGTTTCTCTCTCCTTCCTCGTCGTTCACAGCCAAGCCACCCAAAATACACGCACTGGTTACACCACAACAGACACACACACACACACGCATCACATGTATCACTGAGAATTGCCTAGAATTCTTCTTCAATCCAATGGGAATGGCTCTACCTAACATTGGTTCCTTCTCCACCC...

CDS

Download CDS FASTA

1068 bp · TkA04G154390|TK1151|CDS

ATGTTACGGTGGGGCAGCGGAGCATGTAACCAGAGCCCTACATCGGTTCCCAAAGCAAGCCACATCATTTCTTCCCCGTTTCTCTCTCCTTCCTCGTCGTTCACAGCCAAGCCACCCAAAATACACGCACTGGTTACACCACAACAGACACACACACACACACGCATCACATGTATCACTGAGAATTGCCTAGAATTCTTCTTCAATCCAATGGGAATGGCTCTACCTAACATTGGTTCCTTCTCCACCCCAGCCGCTGC...

Protein

Download Protein FASTA

355 aa · TkA04G154390|TK1151|PROTEIN

MLRWGSGACNQSPTSVPKASHIISSPFLSPSSSFTAKPPKIHALVTPQQTHTHTRITCITENCLEFFFNPMGMALPNIGSFSTPAAAVAPPSTNSSSSSADDASKKIRKPYTITKSRESWTEPEHDKFLEALQLFDRDWKKIEAFIGSKTVIQIRSHAQKYFLKVQKSGTNEHLPPPRPKRKAAHPYPQKAAKNPPVLSNVTSSFQTPEFIQTNPSTAVKNSVETDNLSHIANDDIISGGQQMAVNYSSSNESAPKTRTT...

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	`TkA04G154390`
TK1151 ID	TkA04G154390
OH-1004 ID	LXL04_035206
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	100.000
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

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 TkA04G154390

Location Chr04:39938695-39941660 (-)

Description Similar to RVE6: Protein REVEILLE 6

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g52660`	Probable transcription factor (By similarity).	No verified direct reference in this release
`At1g01520`	Probable transcription factor.	No verified direct reference in this release
`At4g01280`	Probable transcription factor.	No verified direct reference in this release
`At3g09600`	Transcriptional activator of evening element (EE)-containing clock-controlled genes.	Functional implication of the MYB transcription factor RVE8/LCL5 in the circadian control of histone acetylation.2011 · DOI: 10.1111/j.1365-313x.2011.04484.x Histone acetylation and the circadian clock: a role for the MYB transcription factor RVE8/LCL5.2011 · DOI: 10.4161/psb.6.4.14837 REVEILLE8 and PSEUDO-REPONSE REGULATOR5 form a negative feedback loop within the Arabidopsis circadian clock.2011 · DOI: 10.1371/journal.pgen.1001350 Accurate timekeeping is controlled by a cycling activator in Arabidopsis.2013 · DOI: 10.7554/elife.00473 SWELLMAP 2, a phyB-Interacting Splicing Factor, Negatively Regulates Seedling Photomorphogenesis in Arabidopsis .2022 · DOI: 10.3389/fpls.2022.836519
`At5g02840`	Probable transcription factor.	Multifocal two-photon laser scanning microscopy combined with photo-activatable GFP for in vivo monitoring of intracellular protein dynamics in real time.2007 · DOI: 10.1016/j.jsb.2006.12.012

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_035206 · 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:0006355 regulation of DNA-templated transcription Biological Process

GO:0007623 circadian rhythm Biological Process

GO:0009637 response to blue light Biological Process

GO:0010099 regulation of photomorphogenesis Biological Process

GO:0010114 response to red light Biological Process

GO:0010628 positive regulation of gene expression Biological Process

GO:0032922 circadian regulation of gene expression Biological Process

GO:0042752 regulation of circadian rhythm Biological Process

GO:0042753 positive regulation of circadian rhythm Biological Process

GO:0043153 entrainment of circadian clock by photoperiod Biological Process

GO:0045944 positive regulation of transcription by RNA polymerase II Biological Process

KEGG gene cross-reference

ath:AT1G01520

ath:AT3G09600

ath:AT4G01280

ath:AT5G02840

ath:AT5G52660

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.

Nucleus0.885

Rank 1 · TkA04G154390 · TK1151

Cytoplasm0.177

Rank 2 · TkA04G154390 · TK1151

Cell membrane0.043

Rank 3 · TkA04G154390 · TK1151

Endoplasmic reticulum0.034

Rank 4 · TkA04G154390 · TK1151

Plastid0.016

Rank 5 · TkA04G154390 · 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.

PF15963Myb_DNA-bind_7112-156 aa

PF00249Myb_DNA-binding117-162 aa

PF25826DUF7952120-165 aa

PF13921Myb_DNA-bind_6120-154 aa

PF24904RVE6138-149 aa

PF24904RVE6272-334 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G154390	`PF15963`	Myb_DNA-bind_7	112	156	0.0072	16.8
TkA04G154390	`PF00249`	Myb_DNA-binding	117	162	1e-10	42.3
TkA04G154390	`PF25826`	DUF7952	120	165	0.0017	19.2
TkA04G154390	`PF13921`	Myb_DNA-bind_6	120	154	0.062	14.2
TkA04G154390	`PF24904`	RVE6	138	149	7.1e-38	129.3
TkA04G154390	`PF24904`	RVE6	272	334	7.1e-38	129.3

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
`Q8H0W3`	Arabidopsis thaliana	sp\|Q8H0W3\|RVE6_ARATH Protein REVEILLE 6	54.900%	Swiss-Prot	High
`Q6R0H0`	Arabidopsis thaliana	sp\|Q6R0H0\|RVE3_ARATH Protein REVEILLE 3	53.500%	Swiss-Prot	High
`C0SVG5`	Arabidopsis thaliana	sp\|C0SVG5\|RVE5_ARATH Protein REVEILLE 5	50.500%	Swiss-Prot	High
`Q8RWU3`	Arabidopsis thaliana	sp\|Q8RWU3\|RVE8_ARATH Protein REVEILLE 8	58.100%	Swiss-Prot	Medium
`Q6R0G4`	Arabidopsis thaliana	sp\|Q6R0G4\|RVE4_ARATH Protein REVEILLE 4	54.800%	Swiss-Prot	Medium

JBrowse

View in Genome Browser

Gene Card