TkA04G280700 | RubberDandelionOmics

Gene overview

TkA04G280700

Reference: TK1151 Chr: Chr04 Coordinates: 70691297-70693624 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1260 bp · TkA04G280700|TK1151|cDNA

TATACTATTTAATAAATCCCGTGCACGTTTCTACAGTGCACGGGACCCAAACCGAGATCCAAACCGAGATAAACGGACTAATCGGAGATTGCTTGGAGCTGGTGCGACTGTTCTCAAGAGTGTTGGAGGGTTCCCGAAGAAGAGGAACTGGTCGTCTTCAATCAAATCGGTTCTCGATTTTGATCGCGTTGATCATGTAGACGCCGACGCCCAACAATCGTCCGATTCCAAACATAAGGTGTGAATTCGTTTTCTCAATT...

CDS

Download CDS FASTA

612 bp · TkA04G280700|TK1151|CDS

ATGCTATATTGGTCCAAGACTTCTGAAATCGAGTCTAAGACTTCTGGCAGTTACATCAGCAACCAGTTCAAGAGTTTGGTGTCTTATACACACTGTGGTTTCGAAATCGATTTCCAGCAAACCAGTTCTAAGACTTCTGCCAGTTACATCAGCAAACCAGTTCAAGAGTTTGGTGTCTTATACACACTGTGGTTTCGAAATCGATTTTCCAGATTGTTATGCTCCAACGAAATCTACTTATGGGGGGGACGATTAGATCA...

Protein

Download Protein FASTA

203 aa · TkA04G280700|TK1151|PROTEIN

MLYWSKTSEIESKTSGSYISNQFKSLVSYTHCGFEIDFQQTSSKTSASYISKPVQEFGVLYTLWFRNRFSRLLCSNEIYLWGGRLDHDRYRDWRLDVDTMSYKELLELGDKIGYVSTGLREMRSVAVLEKPSLQICLTASHRLTSQMRCNGMHHLSGFFSHKINHFQLIQVSFINQHINVTHRISTYECSHEGYCSSLNKIII

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	`TkA04G280700`
TK1151 ID	TkA04G280700
OH-1004 ID	LXL04_002980
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	55.000
Protein coverage (%)	TK1151 60.099 / OH-1004 75.000 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

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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 TkA04G280700

Location Chr04:70691297-70693624 (+)

Description Similar to RHG1A: Probable E3 ubiquitin-protein ligase RHG1A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g34040`	E3 ubiquitin-protein ligase that functions as a regulator of MED25 stability by targeting MED25 for degradation in a RING-H2- dependent way.	Proteasome-mediated turnover of Arabidopsis MED25 is coupled to the activation of FLOWERING LOCUS T transcription.2012 · DOI: 10.1104/pp.112.205500
`At5g42940`	Probable E3 ubiquitin-protein ligase that may possess E3 ubiquitin ligase activity in vitro.	No verified direct reference in this release
`At2g15530`	E3 ubiquitin-protein ligase that functions as a regulator of MED25 stability by targeting MED25 for degradation in a RING-H2- dependent way.	Proteasome-mediated turnover of Arabidopsis MED25 is coupled to the activation of FLOWERING LOCUS T transcription.2012 · DOI: 10.1104/pp.112.205500

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0648800`	Probable E3 ubiquitin-protein ligase that functions downstream of HAL3 and is required for HAL3-regulated plant growth.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002980 · 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:0009845 seed germination Biological Process

GO:0009908 flower development Biological Process

GO:0010218 response to far red light Biological Process

GO:0010228 vegetative to reproductive phase transition of meristem Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0008270 zinc ion binding Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

GO:0061659 ubiquitin-like protein ligase activity Molecular Function

KEGG gene cross-reference

ath:AT2G15530

ath:AT4G34040

ath:AT5G42940

dosa:Os04g0648800

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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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.

Cytoplasm0.428

Rank 1 · TkA04G280700 · TK1151

Nucleus0.370

Rank 2 · TkA04G280700 · TK1151

Mitochondrion0.182

Rank 3 · TkA04G280700 · TK1151

Cell membrane0.081

Rank 4 · TkA04G280700 · TK1151

Endoplasmic reticulum0.072

Rank 5 · TkA04G280700 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

No result was found for this query.

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.

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Protein	Organism	Description	Identity	Database	Confidence
`O49500`	Arabidopsis thaliana	sp\|O49500\|MBR2_ARATH E3 ubiquitin-protein ligase MBR2	42.700%	Swiss-Prot	Low
`Q9FMM4`	Arabidopsis thaliana	sp\|Q9FMM4\|RHG1A_ARATH Probable E3 ubiquitin-protein ligase RHG1A	51.900%	Swiss-Prot	Low
`Q9ZQF9`	Arabidopsis thaliana	sp\|Q9ZQF9\|MBR1_ARATH E3 ubiquitin-protein ligase MBR1	71.400%	Swiss-Prot	Low
`Q7XTV7`	Oryza sativa subsp. japonica	sp\|Q7XTV7\|HIP1_ORYSJ Probable E3 ubiquitin-protein ligase HIP1	51.900%	Swiss-Prot	Low

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