TkA06G021870 | RubberDandelionOmics

Gene overview

TkA06G021870

Reference: TK1151 Chr: Chr06 Coordinates: 6019689-6022302 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2343 bp · TkA06G021870|TK1151|cDNA

GTGAATTCATAATTGCTTGAAATTTAATATATTGATTGATTAAAAAAACTCATTGAAGACTCCGCCCAATATGTTTTGAATAGAGCACCTGCACCTTCGTCTTCTCTATCATGCGTTTTTGTGCTGCCATTTATTAGCCCAACTCCTTCTCTTTCTCTTTCCATCACACCAATCCAAACACTCATCAAATCAGGTACAACAATGGCCGTTCAAGCTCAATGTTCATCGAATATTCTCCTTCTTAACAGAACCATACAAGA...

CDS

Download CDS FASTA

990 bp · TkA06G021870|TK1151|CDS

ATGGCCGTTCAAGCTCAATGTTCATCGAATATTCTCCTTCTTAACAGAACCATACAAGAAGGCAAAGCCCAAAATGGAAACAAGTATTCTTTGCCACCGCAATCAGGTGGCGGAGTTGGTGGTGATGGTGGAGTAGCAACTAATATTGATCATCAATCTCTCCACCACACCTTATTCAACAATTTTCCAGTTGGGAATTATATTACGAATCAGAGAAAAAGAGGAAGAGAAGACGTTATGGATCATTATATGTCTAATAT...

Protein

Download Protein FASTA

329 aa · TkA06G021870|TK1151|PROTEIN

MAVQAQCSSNILLLNRTIQEGKAQNGNKYSLPPQSGGGVGGDGGVATNIDHQSLHHTLFNNFPVGNYITNQRKRGREDVMDHYMSNIHQQQSRGNQFMDVSQIDHSRNVDVSTGLRLAFNDHHQQHSFSPQPSGFVPLLSENIINQQQDEIDNYLLVQGEECRRNLSEKMQRHYTALIGAAKDSASRMIRDKEAVAEKAIRRNVELEARASQITAEAQVWQAKARAQEAVAAALQAQLQQAMVTGVGGCSSQGEEVAAGD...

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	`TkA06G021870`
TK1151 ID	TkA06G021870
OH-1004 ID	LXL04_026194
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 88.679 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

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 ID TkA06G021870

Location Chr06:6019689-6022302 (-)

Description Similar to BOI: E3 ubiquitin-protein ligase BOI

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g19700`	E3 ubiquitin-protein ligase involved in the regulation of pathogen and abiotic stress responses by facilitating degradation of MYB108/BOI.	No verified direct reference in this release
`At5g45100`	E3 ubiquitin-protein ligase involved in regulation of abiotic stress responses.	DELLA proteins and their interacting RING Finger proteins repress gibberellin responses by binding to the promoters of a subset of gibberellin-responsive genes in Arabidopsis.2013 · DOI: 10.1105/tpc.112.108951
`At3g12920`	Probable E3 ubiquitin-protein ligase.	DELLA proteins and their interacting RING Finger proteins repress gibberellin responses by binding to the promoters of a subset of gibberellin-responsive genes in Arabidopsis.2013 · DOI: 10.1105/tpc.112.108951
`At1g79110`	Probable E3 ubiquitin-protein ligase.	DELLA proteins and their interacting RING Finger proteins repress gibberellin responses by binding to the promoters of a subset of gibberellin-responsive genes in Arabidopsis.2013 · DOI: 10.1105/tpc.112.108951

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026194 · 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:0006952 defense response Biological Process

GO:0009739 response to gibberellin Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0043067 regulation of programmed cell death Biological Process

GO:0043069 negative regulation of programmed cell death Biological Process

GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

GO:0004869 cysteine-type endopeptidase inhibitor activity Molecular Function

GO:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G79110

ath:AT3G12920

ath:AT4G19700

ath:AT5G45100

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.

Nucleus0.967

Rank 1 · TkA06G021870 · TK1151

Cytoplasm0.102

Rank 2 · TkA06G021870 · TK1151

Cell membrane0.023

Rank 3 · TkA06G021870 · TK1151

Endoplasmic reticulum0.015

Rank 4 · TkA06G021870 · TK1151

Plastid0.012

Rank 5 · TkA06G021870 · 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.

PF14661HAUS6_N145-233 aa

PF13920zf-C3HC4_3282-317 aa

PF14447Prok-RING_4282-317 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G021870	`PF14661`	HAUS6_N	145	233	0.16	12.3
TkA06G021870	`PF13920`	zf-C3HC4_3	282	317	1.2e-09	38.5
TkA06G021870	`PF14447`	Prok-RING_4	282	317	0.00058	20.4

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
`O81851`	Arabidopsis thaliana	sp\|O81851\|BOI_ARATH E3 ubiquitin-protein ligase BOI	33.500%	Swiss-Prot	Medium
`Q9FHE4`	Arabidopsis thaliana	sp\|Q9FHE4\|BRG1_ARATH BOI-related E3 ubiquitin-protein ligase 1	33.800%	Swiss-Prot	Medium
`Q9LDD1`	Arabidopsis thaliana	sp\|Q9LDD1\|BRG3_ARATH Probable BOI-related E3 ubiquitin-protein ligase 3	28.100%	Swiss-Prot	Low
`F4IDI6`	Arabidopsis thaliana	sp\|F4IDI6\|BRG2_ARATH Probable BOI-related E3 ubiquitin-protein ligase 2	27.600%	Swiss-Prot	Low

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