TkA01G098170 | RubberDandelionOmics

Gene overview

TkA01G098170

Reference: TK1151 Chr: Chr01 Coordinates: 24795261-24795942 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

486 bp · TkA01G098170|TK1151|cDNA

GCTCTTTTGGAAAGACAACATTGGGCTCCACATATATTAACATGGTATCAGAGCTATAGTTTAAATTCTGACCACAACAATTCCTTGCCGCCGACCACCACCTCCGGTGACTTTCTCTCGTCGTCGGAGGCGTATGAAATTGAAGCGAGACTACATCCTCACAGCAAGGAAGGAAAATTAATACTTGAGCCGATTGAAAAACACAAGTATAGAGCATGGGAACAAGAATCAGCCCCCATGCTCTTAAAGCTTCAAAAACT...

CDS

Download CDS FASTA

486 bp · TkA01G098170|TK1151|CDS

GCTCTTTTGGAAAGACAACATTGGGCTCCACATATATTAACATGGTATCAGAGCTATAGTTTAAATTCTGACCACAACAATTCCTTGCCGCCGACCACCACCTCCGGTGACTTTCTCTCGTCGTCGGAGGCGTATGAAATTGAAGCGAGACTACATCCTCACAGCAAGGAAGGAAAATTAATACTTGAGCCGATTGAAAAACACAAGTATAGAGCATGGGAACAAGAATCAGCCCCCATGCTCTTAAAGCTTCAAAAACT...

Protein

Download Protein FASTA

161 aa · TkA01G098170|TK1151|PROTEIN

ALLERQHWAPHILTWYQSYSLNSDHNNSLPPTTTSGDFLSSSEAYEIEARLHPHSKEGKLILEPIEKHKYRAWEQESAPMLLKLQKLKDICKRAITEEMSGDEELLELCEEVFETASIPYHLRCPITFDHFFDPVVTPSGHTYERTICRRAWIQSPPNPSG

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	`TkA01G098170`
TK1151 ID	TkA01G098170
OH-1004 ID	LXL04_000788
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	40.200
Protein coverage (%)	TK1151 59.627 / OH-1004 39.925 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 TkA01G098170

Location Chr01:24795261-24795942 (-)

Description Similar to CHIP: E3 ubiquitin-protein ligase CHIP

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g07370`	Has E3 ubiquitin-protein ligase activity and may target misfolded substrates towards proteasomal degradation.	AtCHIP, a U-box-containing E3 ubiquitin ligase, plays a critical role in temperature stress tolerance in Arabidopsis.2003 · DOI: 10.1104/pp.103.020800 AtCHIP functions as an E3 ubiquitin ligase of protein phosphatase 2A subunits and alters plant response to abscisic acid treatment.2006 · DOI: 10.1111/j.1365-313x.2006.02730.x The chloroplast protease subunit ClpP4 is a substrate of the E3 ligase AtCHIP and plays an important role in chloroplast function.2007 · DOI: 10.1111/j.1365-313x.2006.02963.x The E3 ligase AtCHIP ubiquitylates FtsH1, a component of the chloroplast FtsH protease, and affects protein degradation in chloroplasts.2007 · DOI: 10.1111/j.1365-313x.2007.03239.x Heat shock protein cognate 70-4 and an E3 ubiquitin ligase, CHIP, mediate plastid-destined precursor degradation through the ubiquitin-26S proteasome system in Arabidopsis.2009 · DOI: 10.1105/tpc.109.071548

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_000788 · 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:0000165 MAPK cascade Biological Process

GO:0000209 protein polyubiquitination Biological Process

GO:0002931 response to ischemia Biological Process

GO:0006281 DNA repair Biological Process

GO:0006457 protein folding Biological Process

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0006513 protein monoubiquitination Biological Process

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

GO:0007165 signal transduction Biological Process

GO:0009266 response to temperature stimulus Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009737 response to abscisic acid Biological Process

KEGG gene cross-reference

ath:AT3G07370

gga:426918

hsa:10273

mmu:56424

rno:287155

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.

Nucleus0.618

Rank 1 · TkA01G098170 · TK1151

Cytoplasm0.456

Rank 2 · TkA01G098170 · TK1151

Mitochondrion0.051

Rank 3 · TkA01G098170 · TK1151

Cell membrane0.048

Rank 4 · TkA01G098170 · TK1151

Endoplasmic reticulum0.040

Rank 5 · TkA01G098170 · 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.

PF13445zf-RING_UBOX90-95 aa

PF13923zf-C3HC4_2108-116 aa

PF11789zf-Nse109-122 aa

PF04564U-box118-150 aa

PF11789zf-Nse121-146 aa

PF13923zf-C3HC4_2123-146 aa

PF13445zf-RING_UBOX124-147 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G098170	`PF13445`	zf-RING_UBOX	90	95	0.00017	22.2
TkA01G098170	`PF13923`	zf-C3HC4_2	108	116	0.16	12.5
TkA01G098170	`PF11789`	zf-Nse	109	122	0.01	16.4
TkA01G098170	`PF04564`	U-box	118	150	1.3e-06	29.2
TkA01G098170	`PF11789`	zf-Nse	121	146	0.01	16.4
TkA01G098170	`PF13923`	zf-C3HC4_2	123	146	0.16	12.5
TkA01G098170	`PF13445`	zf-RING_UBOX	124	147	0.00017	22.2

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
`Q9SRS9`	Arabidopsis thaliana	sp\|Q9SRS9\|CHIP_ARATH E3 ubiquitin-protein ligase CHIP	37.400%	Swiss-Prot	Medium

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