RubberDandelionOmics Rubber Dandelion Multi-omics Website
More
Transcriptome Expression Annotation Rubber Pathway TF Prediction Targets Protein Network Resequencing Tools Downloads
ZH EN

How to use this page

Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

TkA01G588220
Reference: TK1151 Chr: Chr01 Coordinates: 147966997-147969710 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1398 bp · TkA01G588220|TK1151|cDNA

TTTTAACTAACCGTAATTATCCCAAAACTCATGTTGTATTTCAAAATGCAATCCGAACCATCTCTTCCATACCTAATCACACAATCTCGTTGACGGATCAGTCATATTCGACGGCGATCTAGAACAATCCTCGCCTCCGATATTAGTTTGCGCGCACGCCGTCGCCAACGTCTTTCCTTCGCTCTCTCTTCTCGCCGTTAACGATCCGTTTCTTTACTCTTAAGGCTTTGGAGAGGGAGAAATACACTCGCAGAAGGATC...

CDS

Download CDS FASTA

807 bp · TkA01G588220|TK1151|CDS

ATGGCGAAGGGCGTGTGTTCGGCGGCCGTGCAAGCAGAACAACTTAAGCAAGACGGAAACCTGTATTTCAAAAAGAATAGGTTGGGAGCCGCCATCGATGCTTATACCGAGGCCATCACTTTGTGCCCTGATGTTCCGGTTTATTGGACCAATCGGGCTTTATGCCATCGCAAGCGCAATGATTGGACAAGAGTTGAAGAGGACTGTCGGAAGGCTGTTCAGCTTGATCATAAATCTGTCAAGGGTCACTACATGCTAGG...

Protein

Download Protein FASTA

268 aa · TkA01G588220|TK1151|PROTEIN

MAKGVCSAAVQAEQLKQDGNLYFKKNRLGAAIDAYTEAITLCPDVPVYWTNRALCHRKRNDWTRVEEDCRKAVQLDHKSVKGHYMLGLALIERENYSEGIKSLERALDHGRGAHPNSYMVEEIWQELAKAKYQEWERHSTKRNWDLHKLQESCEMALKEHHVDGDVDVNEQLEALKLVFEKAAEADVPTEVPDYLCCKITLDIFRDPVITPSGLTYERAVILDHLEKVGKFDPITRESLVQSQLVPNMAIKEAVGAFLEK...

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.

Download Gene (CDS) Download Protein

ID Mapping

Input IDTkA01G588220
TK1151 IDTkA01G588220
OH-1004 IDLXL04_000788
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)100.000
Protein coverage (%)TK1151 100.000 / OH-1004 100.000
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 versionTK1151 / 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 IDTkA01G588220
LocationChr01:147966997-147969710 (-)
DescriptionSimilar to CHIP: E3 ubiquitin-protein ligase CHIP
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / 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.

Cytoplasm0.562
Rank 1 · TkA01G588220 · TK1151
Nucleus0.446
Rank 2 · TkA01G588220 · TK1151
Mitochondrion0.138
Rank 3 · TkA01G588220 · TK1151
Cell membrane0.054
Rank 4 · TkA01G588220 · TK1151
Golgi apparatus0.046
Rank 5 · TkA01G588220 · 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.

PF17874TPR_MalT11-44 aa
PF00515TPR_112-44 aa
PF13371TPR_912-45 aa
PF25575TPR_BSK1_C13-85 aa
PF15906zf-NOSIP14-26 aa
PF29407CFAP70_TPR_C16-49 aa
PF07719TPR_219-44 aa
PF13414TPR_1119-54 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G588220PF17874TPR_MalT11440.02914.4
TkA01G588220PF00515TPR_112444.1e-1968.2
TkA01G588220PF13371TPR_912453.2e-0524.6
TkA01G588220PF25575TPR_BSK1_C13850.01216.2
TkA01G588220PF15906zf-NOSIP14260.0001122.9
TkA01G588220PF29407CFAP70_TPR_C16490.0005520.2
TkA01G588220PF07719TPR_219441.1e-1557.1
TkA01G588220PF13414TPR_1119544.1e-1143.1
TkA01G588220PF13181TPR_819442e-0834.4
TkA01G588220PF13432TPR_1619751.3e-0629.4
TkA01G588220PF13424TPR_1219425.1e-0524.1
TkA01G588220PF13176TPR_719440.04514.6
TkA01G588220PF13174TPR_619440.05214.9
TkA01G588220PF13374TPR_1019420.1812.5
TkA01G588220PF13428TPR_1420534.3e-0730.7
TkA01G588220PF13371TPR_920643.2e-0524.6

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
Q9SRS9Arabidopsis thalianasp|Q9SRS9|CHIP_ARATH E3 ubiquitin-protein ligase CHIP63.700%Swiss-ProtHigh

JBrowse

View in Genome Browser