TkA03G387420 | RubberDandelionOmics

Gene overview

TkA03G387420

Reference: TK1151 Chr: Chr03 Coordinates: 95846169-95849263 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1230 bp · TkA03G387420|TK1151|cDNA

TGGATCCAGCTAATTCGCAATTTTAGTCCACAAAAATCGCCACCTAAATGCAATTGTTGTTAAATCTGAGGGGTTGTTCTCTCCGGCTGATTTCCATATATCTGACGTCCTCCTACTGGACTCTGGAGCCATCCATGAAGCTTTCGTTCTCTACTTGAAGATGCAAAAACCGTCGTCAAATACCTCGGATTATCAAATACCTTCGCTTCATCAAATATATCGGCGGTTTTTCTTTCTCCTGATGGGCCTCCTCGATTTCT...

CDS

Download CDS FASTA

420 bp · TkA03G387420|TK1151|CDS

ATGGTGTGTTTCGTTGGAAATACAAGTTTCAACCAACTTCAGTTCATCTCCCCCCACCCCACAAAATCACGTTTTCTTGCTGATGTGTTCTTGCTTTCTCTGGTTGCTGTTTCAATTTTTCTTGCTACAGATACATTTATACCGAGGGACACAAGAACTCAGAAGAACATTTCTAAGTTGAATGATGAACTCTATGAAGTTCACCAAATAATGACCCGTAATGTGCAGGAAGTTCTTGGTGTTGGTGAAAAGTTGGACCA...

Protein

Download Protein FASTA

139 aa · TkA03G387420|TK1151|PROTEIN

MVCFVGNTSFNQLQFISPHPTKSRFLADVFLLSLVAVSIFLATDTFIPRDTRTQKNISKLNDELYEVHQIMTRNVQEVLGVGEKLDQVSQMSSRLTSDTRIYADKARDLNRQTLIKKWAPVAIVVGFVILLLWAKNKIW

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	`TkA03G387420`
TK1151 ID	TkA03G387420
OH-1004 ID	LXL04_008301
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	97.800
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 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 TkA03G387420

Location Chr03:95846169-95849263 (+)

Description Similar to SEC22: 25.3 kDa vesicle transport protein

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g11890`	V-SNARE involved in vesicle trafficking from the ER to the Golgi complex and required for early secretion.	Arabidopsis SNARE protein SEC22 is essential for gametophyte development and maintenance of Golgi-stack integrity.2011 · DOI: 10.1111/j.1365-313x.2011.04487.x Caesium accumulation in yeast and plants is selectively repressed by loss of the SNARE Sec22p/SEC22.2013 · DOI: 10.1038/ncomms3092

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_008301 · 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:0006886 intracellular protein transport Biological Process

GO:0006888 endoplasmic reticulum to Golgi vesicle-mediated transport Biological Process

GO:0006890 retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum Biological Process

GO:0006906 vesicle fusion Biological Process

GO:0007029 endoplasmic reticulum organization Biological Process

GO:0007030 Golgi organization Biological Process

GO:0009553 embryo sac development Biological Process

GO:0009555 pollen development Biological Process

GO:0015031 protein transport Biological Process

GO:0048229 gametophyte development Biological Process

GO:0048279 vesicle fusion with endoplasmic reticulum Biological Process

GO:0048280 vesicle fusion with Golgi apparatus Biological Process

KEGG gene cross-reference

ago:AGOS_AGR267W

ath:AT1G11890

kla:KLLA0_F20251g

sce:YLR268W

vda:VDAG_08386

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.

Endoplasmic reticulum0.415

Rank 1 · TkA03G387420 · TK1151

Golgi apparatus0.359

Rank 2 · TkA03G387420 · TK1151

Cytoplasm0.119

Rank 3 · TkA03G387420 · TK1151

Nucleus0.096

Rank 4 · TkA03G387420 · TK1151

Mitochondrion0.063

Rank 5 · TkA03G387420 · 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.

PF18967PycTM25-108 aa

PF02646RmuC28-109 aa

PF30555DUF862429-44 aa

PF04102SlyX53-95 aa

PF11855DUF337554-114 aa

PF13870CCDC113_CCDC96_CC54-112 aa

PF00957Synaptobrevin56-134 aa

PF30555DUF8624117-139 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA03G387420	`PF18967`	PycTM	25	108	0.077	13.5
TkA03G387420	`PF02646`	RmuC	28	109	0.073	12.9
TkA03G387420	`PF30555`	DUF8624	29	44	3.7	8.2
TkA03G387420	`PF04102`	SlyX	53	95	0.32	12.4
TkA03G387420	`PF11855`	DUF3375	54	114	0.0096	15.5
TkA03G387420	`PF13870`	CCDC113_CCDC96_CC	54	112	0.082	13.3
TkA03G387420	`PF00957`	Synaptobrevin	56	134	4.6e-18	65.6
TkA03G387420	`PF30555`	DUF8624	117	139	3.7	8.2

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
`Q94AU2`	Arabidopsis thaliana	sp\|Q94AU2\|SC221_ARATH 25.3 kDa vesicle transport protein SEC22-1	76.400%	Swiss-Prot	High

JBrowse

View in Genome Browser

Gene Card