TkA04G007450 | RubberDandelionOmics

Gene overview

TkA04G007450

Reference: TK1151 Chr: Chr04 Coordinates: 1776719-1777151 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

369 bp · TkA04G007450|TK1151|cDNA

TACAGAACCTCAAGTAGTCAATCTTCTATTCCTGATCAAGATCAAGCCGGTCCTTCAGATCTCCAAACAGCTACAAATTCATGGAAATCAAGATTTAATGCTATTTCATTGAGATACAGGGAATCATTATCAAAGAGTACAAAAGAGCTGAAAGACAGGCTTTTCAACAAGAGTCCATCTATGTCAAACATTGGTTCAGAAGATAACAGGAGAGAAGTTGAGAATGTGTCCCAAATGATGGATGTGTCCCAAATGATGGA...

CDS

Download CDS FASTA

369 bp · TkA04G007450|TK1151|CDS

TACAGAACCTCAAGTAGTCAATCTTCTATTCCTGATCAAGATCAAGCCGGTCCTTCAGATCTCCAAACAGCTACAAATTCATGGAAATCAAGATTTAATGCTATTTCATTGAGATACAGGGAATCATTATCAAAGAGTACAAAAGAGCTGAAAGACAGGCTTTTCAACAAGAGTCCATCTATGTCAAACATTGGTTCAGAAGATAACAGGAGAGAAGTTGAGAATGTGTCCCAAATGATGGATGTGTCCCAAATGATGGA...

Protein

Download Protein FASTA

122 aa · TkA04G007450|TK1151|PROTEIN

YRTSSSQSSIPDQDQAGPSDLQTATNSWKSRFNAISLRYRESLSKSTKELKDRLFNKSPSMSNIGSEDNRREVENVSQMMDVSQMMDQLQVQTHDENNIQQDHDHPPSTTSSPNDNNTPAAT

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	`TkA04G007450`
TK1151 ID	TkA04G007450
OH-1004 ID	LXL04_002718
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	90.400
Protein coverage (%)	TK1151 94.262 / OH-1004 56.771 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 TkA04G007450

Location Chr04:1776719-1777151 (+)

Description Similar to RHF2A: E3 ubiquitin-protein ligase RHF2A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g22000`	E3 ubiquitin-protein ligase involved in the positive regulation of the gametogenesis progression.	Targeted degradation of the cyclin-dependent kinase inhibitor ICK4/KRP6 by RING-type E3 ligases is essential for mitotic cell cycle progression during Arabidopsis gametogenesis.2008 · DOI: 10.1105/tpc.108.059741

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002718 · 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:0009561 megagametogenesis Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0051603 proteolysis involved in protein catabolic process Biological Process

GO:0051726 regulation of cell cycle Biological Process

GO:0055046 microgametogenesis Biological Process

GO:0005634 nucleus Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

GO:0008270 zinc ion binding Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

KEGG gene cross-reference

ath:AT5G22000

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.

Cytoplasm0.547

Rank 1 · TkA04G007450 · TK1151

Nucleus0.294

Rank 2 · TkA04G007450 · TK1151

Cell membrane0.110

Rank 3 · TkA04G007450 · TK1151

Mitochondrion0.100

Rank 4 · TkA04G007450 · TK1151

Endoplasmic reticulum0.070

Rank 5 · TkA04G007450 · 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.

PF13695Zn_ribbon_3CxxC24-105 aa

PF15964CCCAP42-120 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G007450	`PF13695`	Zn_ribbon_3CxxC	24	105	0.2	13.0
TkA04G007450	`PF15964`	CCCAP	42	120	0.12	11.3

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9ZT42`	Arabidopsis thaliana	sp\|Q9ZT42\|RHF2A_ARATH E3 ubiquitin-protein ligase RHF2A	57.400%	Swiss-Prot	Medium

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