TkA04G002240 | RubberDandelionOmics

Gene overview

TkA04G002240

Reference: TK1151 Chr: Chr04 Coordinates: 560491-563899 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2052 bp · TkA04G002240|TK1151|cDNA

GCAAAATTTTCAAAAGTTTTTGAAATCCTCTCTTAAATACTAAATCTTCTCTCAAAATTTTGAAATCGTCTCTTTCAAAATCTATCACTTCAACCCGCAGATTTCATGTTCTTCTTCGTCGATCCGTGCTTTGCATTTCGTCCCGAAACAGGATTTAGTATCTGAAACACGGATCCGTGTGTTGCATTTCACCATCTTCTTCGTCGATCCCACCAGTCGCCCGAGAGAACCCCACGAAATCGGAAGCAGGCAGCGAATCC...

CDS

Download CDS FASTA

675 bp · TkA04G002240|TK1151|CDS

ATGGTGATCAATCAAGACACAGATCTTCAGAGAATTATCCCCATATTGGCCCCAGTTCTAGAGGAAGGGTCGACGCCTGTAAAGTTGCCATTGAACCCTGGACTATCAGCAGAGAGAGCAGAAAGAACCCCAGTGAAACAAGATAGATTCTCAGGGGCAGTTGAGTCATTTACTAGACGGAATGGTTCTAGCAGTGGCTTGCATGGTGATCAATCAAGACACAGATCTTCAGAGAATGTAACACCCTCCAAAGATGTGGT...

Protein

Download Protein FASTA

224 aa · TkA04G002240|TK1151|PROTEIN

MVINQDTDLQRIIPILAPVLEEGSTPVKLPLNPGLSAERAERTPVKQDRFSGAVESFTRRNGSSSGLHGDQSRHRSSENVTPSKDVVRLYTNPRNARYRQDFHHGPCCEGFACAALVDAGTPLKHLAVAICCCMAENGQILLDPSKIEEQKVKAFVYLVFPNSIVSILPLKHLAGKIKMSFNCNLSFGKLVLQVFDVMSQRAFGWVVFIPKTAIVPGNPRHPTL

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	`TkA04G002240`
TK1151 ID	TkA04G002240
OH-1004 ID	LXL04_015933
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	92.200
Protein coverage (%)	TK1151 28.571 / OH-1004 9.275 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

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Basic Information and Functional Annotation

Gene ID TkA04G002240

Location Chr04:560491-563899 (+)

Description Similar to RRP46: Exosome complex exonuclease RRP46 homolog

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g46210`	Probable component of the exosome 3'->5' exoribonuclease complex, a complex that degrades inherently unstable mRNAs containing AU-rich elements (AREs) within their 3'-untranslated regions.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0854200`	May participate in RNA processing and degradation.	Structural and biochemical characterization of CRN-5 and Rrp46: an exosome component participating in apoptotic DNA degradation.2010 · DOI: 10.1261/rna.2180810

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_015933 · 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:0006364 rRNA processing Biological Process

GO:0006396 RNA processing Biological Process

GO:0006401 RNA catabolic process Biological Process

GO:0006402 mRNA catabolic process Biological Process

GO:0016075 rRNA catabolic process Biological Process

GO:0034475 U4 snRNA 3'-end processing Biological Process

GO:0045006 DNA deamination Biological Process

GO:0051607 defense response to virus Biological Process

GO:0071028 nuclear mRNA surveillance Biological Process

GO:0071051 poly(A)-dependent snoRNA 3'-end processing Biological Process

GO:0000176 nuclear exosome (RNase complex) Cellular Component

GO:0000177 cytoplasmic exosome (RNase complex) Cellular Component

KEGG gene cross-reference

ath:AT3G46210

dosa:Os03g0854200

hsa:56915

mmu:27998

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.

Cytoplasm0.382

Rank 1 · TkA04G002240 · TK1151

Nucleus0.335

Rank 2 · TkA04G002240 · TK1151

Mitochondrion0.227

Rank 3 · TkA04G002240 · TK1151

Peroxisome0.078

Rank 4 · TkA04G002240 · TK1151

Endoplasmic reticulum0.054

Rank 5 · TkA04G002240 · 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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9LX74`	Arabidopsis thaliana	sp\|Q9LX74\|EXOS5_ARATH Exosome complex exonuclease RRP46 homolog	68.800%	Swiss-Prot	Low
`Q84T68`	Oryza sativa subsp. japonica	sp\|Q84T68\|EXOS5_ORYSJ Exosome complex exonuclease RRP46 homolog	60.300%	Swiss-Prot	Low

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