TkA06G034900 | RubberDandelionOmics

Gene overview

TkA06G034900

Reference: TK1151 Chr: Chr06 Coordinates: 9401539-9405083 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2938 bp · TkA06G034900|TK1151|cDNA

GTAAATTTTCACACGACTACCATGTTATTATAACCTTCTATTTTTGGTATTTTTGTGAATATTCTTTAAATATTACTTGAAAAAAGAAATGTTTAATTGAAAAATGAACCCAAACAAAAGAGAGTTTTTCAGGTAAAACACATATGCGAAATTTTACTAGTATAACAAGAGGCGAAAGAGAGATTGAAACTTTGATTGCTCGAACCCCGATTAGCTGAAATCGGTCATCAGAAGAACCTAAATTGTTTCCTCGTTGATTC...

CDS

Download CDS FASTA

2283 bp · TkA06G034900|TK1151|CDS

ATGGCGACAGTTAGTAGTTCCACTCATATATCACCAGTTACAACTGTGCAAGAGAAGGGGAGTAGAAATAAGAGAAAATTCAGAGCTGATCCACCACCTCTATCAGATCCAAACAAAACAACTTCTTCATCTCAAAACGAATGCCTCGGTTATGAATTCTCTGCTGAAAACTTTCCAAACCATGAACACTTTAATGGCTGTGACATGTGCAGTTTCAGTCATGAAAGCACAGATCCTGTTGAGCTTGATCTAGCACTCTC...

Protein

Download Protein FASTA

760 aa · TkA06G034900|TK1151|PROTEIN

MATVSSSTHISPVTTVQEKGSRNKRKFRADPPPLSDPNKTTSSSQNECLGYEFSAENFPNHEHFNGCDMCSFSHESTDPVELDLALSCSVGVGSSEVGPRNHNRSEIEPSDEFHDADWSDLTESQLEELVLANLDTIFKSAINKIVSFGYTKEVATNAVLRSGLCYGCKDAVSNIVNNTLVFLRNGQEVDSSREHHFEDLQQMEKYILAELVCVVREVRPFFSTGDAMWCLLVSDMNVSHACTLDSDALNTSIVPDGSSN...

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	`TkA06G034900`
TK1151 ID	TkA06G034900
OH-1004 ID	LXL04_025904
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	94.700
Protein coverage (%)	TK1151 99.079 / OH-1004 83.724 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 TkA06G034900

Location Chr06:9401539-9405083 (-)

Description Similar to RF298: Putative E3 ubiquitin-protein ligase RF298

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g03000`	Putative E3 ubiquitin-protein ligase RF298.	No verified direct reference in this release
`At1g03365`	Putative E3 ubiquitin-protein ligase RF4.	No verified direct reference in this release
`At1g32530`	MND1-interacting protein 1.	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_025904 · 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:0016567 protein ubiquitination Biological Process

GO:0031398 positive regulation of protein ubiquitination Biological Process

GO:0051726 regulation of cell cycle Biological Process

GO:0051865 protein autoubiquitination Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0004869 cysteine-type endopeptidase inhibitor activity Molecular Function

GO:0008270 zinc ion binding Molecular Function

GO:0043027 cysteine-type endopeptidase inhibitor activity involved in apoptotic process Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

KEGG gene cross-reference

ath:AT1G03365

ath:AT1G32530

ath:AT4G03000

xla:398387

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.

Cytoplasm0.564

Rank 1 · TkA06G034900 · TK1151

Nucleus0.422

Rank 2 · TkA06G034900 · TK1151

Cell membrane0.112

Rank 3 · TkA06G034900 · TK1151

Endoplasmic reticulum0.048

Rank 4 · TkA06G034900 · TK1151

Golgi apparatus0.034

Rank 5 · TkA06G034900 · 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.

PF20235PIR2-like_helical102-130 aa

PF20235PIR2-like_helical133-245 aa

PF30816CEP152_CC1505-617 aa

PF25450Rab11-FIP3514-627 aa

PF20235PIR2-like_helical558-616 aa

PF30816CEP152_CC1660-754 aa

PF25450Rab11-FIP3666-753 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G034900	`PF20235`	PIR2-like_helical	102	130	6.3e-30	104.5
TkA06G034900	`PF20235`	PIR2-like_helical	133	245	6.3e-30	104.5
TkA06G034900	`PF30816`	CEP152_CC1	505	617	0.44	9.5
TkA06G034900	`PF25450`	Rab11-FIP3	514	627	3.8	8.5
TkA06G034900	`PF20235`	PIR2-like_helical	558	616	6.3e-30	104.5
TkA06G034900	`PF30816`	CEP152_CC1	660	754	0.44	9.5
TkA06G034900	`PF25450`	Rab11-FIP3	666	753	3.8	8.5

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
`Q0WPJ7`	Arabidopsis thaliana	sp\|Q0WPJ7\|RF298_ARATH Putative E3 ubiquitin-protein ligase RF298	36.300%	Swiss-Prot	Medium
`Q9ZVT8`	Arabidopsis thaliana	sp\|Q9ZVT8\|RF4_ARATH Putative E3 ubiquitin-protein ligase RF4	32.100%	Swiss-Prot	Medium
`Q8RX22`	Arabidopsis thaliana	sp\|Q8RX22\|MIP1_ARATH MND1-interacting protein 1	26.900%	Swiss-Prot	Low

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