TkA04G435840 | RubberDandelionOmics

Gene overview

TkA04G435840

Reference: TK1151 Chr: Chr04 Coordinates: 109902317-109904394 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1424 bp · TkA04G435840|TK1151|cDNA

ATAACTAGAGACCTCATCATCGTTCTTGGTCACATAAATCAAATTTATAGAACGATTAAACAAATAGACGATAAATCAAGATTCCATTTGAAACCCTTTGTTGCAGAGACTCATGGCGACGTCGCTACTCCTTTCACCGTTATCTGCTCCGACAGCCGACAGCAATCGTGAGTCCTCAACTAGTTCCACCTCTCTGTTCTTGAAATCGTCTTTTGTACACAACACTAGCAACCTCATCTATGCTCCTTCGAAGAAAGATG...

CDS

Download CDS FASTA

1191 bp · TkA04G435840|TK1151|CDS

ATGGCGACGTCGCTACTCCTTTCACCGTTATCTGCTCCGACAGCCGACAGCAATCGTGAGTCCTCAACTAGTTCCACCTCTCTGTTCTTGAAATCGTCTTTTGTACACAACACTAGCAACCTCATCTATGCTCCTTCGAAGAAAGATGCCACGATTAGGGGGCGATGTTCTAGGTCTCCGGTCACCGCCGCGGATAAATCCCTCGACTACATACCCAAGCAGTTTAGGGAAGGAAACCTCAAAGATGGATTGATGGAGAA...

Protein

Download Protein FASTA

396 aa · TkA04G435840|TK1151|PROTEIN

MATSLLLSPLSAPTADSNRESSTSSTSLFLKSSFVHNTSNLIYAPSKKDATIRGRCSRSPVTAADKSLDYIPKQFREGNLKDGLMENFKNVPQYLYGLSPSQMDMFMTEDNPVRRQAESVTEETISSSHNYLNHGGMWTLSGTNNRGPAKYSMSVSMYRGGGGRGSGRPRSAPPDLPSLLLDARICYLGMPIVPAVTELLVAQFMWLDYDNPSKPIYLYINSSGTQNDKMETVGSETEAYAIADIMSYCKSEVYTVNCGM...

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	`TkA04G435840`
TK1151 ID	TkA04G435840
OH-1004 ID	LXL04_038490
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	99.500
Protein coverage (%)	TK1151 95.707 / OH-1004 96.701 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 TkA04G435840

Location Chr04:109902317-109904394 (+)

Description Similar to CLPR1: ATP-dependent Clp protease proteolytic subunit-related protein 1, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g49970`	Required for chloroplast development and differentiation.	An Arabidopsis thaliana virescent mutant reveals a role for ClpR1 in plastid development.2007 · DOI: 10.1007/s11103-006-9074-2 Mutations in SUPPRESSOR OF VARIEGATION1, a factor required for normal chloroplast translation, suppress var2-mediated leaf variegation in Arabidopsis.2008 · DOI: 10.1105/tpc.107.054965
`At1g09130`	ATP-dependent Clp protease proteolytic subunit-related protein 3, chloroplastic.	No verified direct reference in this release
`At4g17040`	Involved in plastid protein homeostasis.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_038490 · 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:0000302 response to reactive oxygen species Biological Process

GO:0006364 rRNA processing Biological Process

GO:0006396 RNA processing Biological Process

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

GO:0009658 chloroplast organization Biological Process

GO:0010468 regulation of gene expression Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009368 endopeptidase Clp complex Cellular Component

KEGG gene cross-reference

ath:AT1G09130

ath:AT1G49970

ath:AT4G17040

syf:Synpcc7942_2538

syn:slr0164

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.

Plastid0.966

Rank 1 · TkA04G435840 · TK1151

Mitochondrion0.032

Rank 2 · TkA04G435840 · TK1151

Nucleus0.027

Rank 3 · TkA04G435840 · TK1151

Cytoplasm0.017

Rank 4 · TkA04G435840 · TK1151

Cell membrane0.015

Rank 5 · TkA04G435840 · 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.

PF30589DUF865389-126 aa

PF00574CLP_protease177-358 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G435840	`PF30589`	DUF8653	89	126	0.26	11.8
TkA04G435840	`PF00574`	CLP_protease	177	358	2.2e-35	122.9

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
`Q9XJ35`	Arabidopsis thaliana	sp\|Q9XJ35\|CLPR1_ARATH ATP-dependent Clp protease proteolytic subunit-related protein 1, chloroplastic	75.500%	Swiss-Prot	High
`Q8L770`	Arabidopsis thaliana	sp\|Q8L770\|CLPR3_ARATH ATP-dependent Clp protease proteolytic subunit-related protein 3, chloroplastic	50.300%	Swiss-Prot	Low
`Q8LB10`	Arabidopsis thaliana	sp\|Q8LB10\|CLPR4_ARATH ATP-dependent Clp protease proteolytic subunit-related protein 4, chloroplastic	44.000%	Swiss-Prot	Low

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