TkA05G215420 | RubberDandelionOmics

Gene overview

TkA05G215420

Reference: TK1151 Chr: Chr05 Coordinates: 54091765-54095198 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

990 bp · TkA05G215420|TK1151|cDNA

GAATCACCTACACACCTCACTGACCTTACCCGAGAGGCGCCATTCCTCCGACACCAGCCTCGATCTTCACCAGCCTCGATCTTCACCAGCTCCTCTCCACGCTTGCACGCCGATTCCCTTGCACGCCAGACGATTTCCATCTCTATATTTACCCTCCCGATTTCAAATGGAGATGCAATTGGTTTCGATTCCATCCCAATTTTACCTCCGACACACACAGGTTCCGTGGGCAATATTGGAAGTTCAAGTGATGCTGCAGG...

CDS

Download CDS FASTA

990 bp · TkA05G215420|TK1151|CDS

GAATCACCTACACACCTCACTGACCTTACCCGAGAGGCGCCATTCCTCCGACACCAGCCTCGATCTTCACCAGCCTCGATCTTCACCAGCTCCTCTCCACGCTTGCACGCCGATTCCCTTGCACGCCAGACGATTTCCATCTCTATATTTACCCTCCCGATTTCAAATGGAGATGCAATTGGTTTCGATTCCATCCCAATTTTACCTCCGACACACACAGGTTCCGTGGGCAATATTGGAAGTTCAAGTGATGCTGCAGG...

Protein

Download Protein FASTA

329 aa · TkA05G215420|TK1151|PROTEIN

ESPTHLTDLTREAPFLRHQPRSSPASIFTSSSPRLHADSLARQTISISIFTLPISNGDAIGFDSIPILPPTHTGSVGNIGSSSDAAGLPWAILEVFSSKLGYSRKMSRKEVRKNGTYIFRFSILISIMDFAGFIHSNSIQGLNNRLQEVKVCLFLSSQFKSVHSSNHLAFFAVYNVESTEIIAFYQMSSEKLYILFEQFCDHFHVPSKNSPYMNFISSHSNNIHALDQLRSSKNKATSFSLGRATPYPYIQNEANELLRI...

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	`TkA05G215420`
TK1151 ID	TkA05G215420
OH-1004 ID	LXL04_021241
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	99.600
Protein coverage (%)	TK1151 77.812 / OH-1004 62.287 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 TkA05G215420

Location Chr05:54091765-54095198 (-)

Description Similar to CLPR2: ATP-dependent Clp protease proteolytic subunit-related protein 2, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g12410`	Required for chloroplast development and integrity.	Downregulation of ClpR2 leads to reduced accumulation of the ClpPRS protease complex and defects in chloroplast biogenesis in Arabidopsis.2006 · DOI: 10.1105/tpc.106.042861
`At4g10180`	Component of light signal transduction machinery.	Arabidopsis COP10 forms a complex with DDB1 and DET1 in vivo and enhances the activity of ubiquitin conjugating enzymes.2004 · DOI: 10.1101/gad.1229504 DET1-mediated degradation of a SAGA-like deubiquitination module controls H2Bub homeostasis.2018 · DOI: 10.7554/elife.37892 DET1 represses a chloroplast blue light-responsive promoter in a developmental and tissue-specific manner in Arabidopsis thaliana.1998 · DOI: 10.1046/j.1365-313x.1998.00078.x

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_021241 · 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:0005975 carbohydrate metabolic process Biological Process

GO:0006281 DNA repair Biological Process

GO:0006515 protein quality control for misfolded or incompletely synthesized proteins Biological Process

GO:0009585 red, far-red light phototransduction Biological Process

GO:0009658 chloroplast organization Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0032436 positive regulation of proteasomal ubiquitin-dependent protein catabolic process Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0009368 endopeptidase Clp complex Cellular Component

KEGG gene cross-reference

ath:AT1G12410

ath:AT4G10180

cyp:PCC8801_0943

pma:Pro_1388

sly:778329

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.

Cytoplasm0.403

Rank 1 · TkA05G215420 · TK1151

Nucleus0.384

Rank 2 · TkA05G215420 · TK1151

Mitochondrion0.156

Rank 3 · TkA05G215420 · TK1151

Cell membrane0.095

Rank 4 · TkA05G215420 · TK1151

Endoplasmic reticulum0.080

Rank 5 · TkA05G215420 · 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.

PF01343Peptidase_S4959-80 aa

PF09737Det1160-238 aa

PF00574CLP_protease250-305 aa

PF01343Peptidase_S49256-304 aa

PF29026DUF4350_C261-295 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA05G215420	`PF01343`	Peptidase_S49	59	80	0.34	11.6
TkA05G215420	`PF09737`	Det1	160	238	8.7e-18	65.3
TkA05G215420	`PF00574`	CLP_protease	250	305	2.7e-12	47.7
TkA05G215420	`PF01343`	Peptidase_S49	256	304	0.34	11.6
TkA05G215420	`PF29026`	DUF4350_C	261	295	0.12	13.3

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
`Q9XJ36`	Arabidopsis thaliana	sp\|Q9XJ36\|CLPR2_ARATH ATP-dependent Clp protease proteolytic subunit-related protein 2, chloroplastic	68.900%	Swiss-Prot	Low
`P48732`	Arabidopsis thaliana	sp\|P48732\|DET1_ARATH Light-mediated development protein DET1	62.300%	Swiss-Prot	Low

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