TkA08G229090 | RubberDandelionOmics

Gene overview

TkA08G229090

Reference: TK1151 Chr: Chr08 Coordinates: 59663219-59671184 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1193 bp · TkA08G229090|TK1151|cDNA

CACTACAAGAAATATAGCTTTTAGGGACGAGAGCTTTAGGGACAACAATAATAGTCGCTAAAAAGTAGGCTTTATCGAGGACATGTTCTCGCAATACAGTTTTAAAATTTTCAACTTTAGGAAAAAGATGCTACGCCGTCGTTTGGTTATTCTTATTTGCCCTAAACAATGACTTCCAGCCACGATGACCTACAGATCCAATTTCAGCTTCGCAAAATTCCAGCTCCCTCGACGCTTATTCACCGGCGACGACCTACGAT...

CDS

Download CDS FASTA

543 bp · TkA08G229090|TK1151|CDS

ATGTTGCCAATTCCTAAAAAGCAATATGCCAGCAACATTGAAAACAAAAGAGTTGATTTGTTTGGAGGACCTGGTCAGGGATTTGAGGAAGATAATGGCTTGCTAGCCTCATCCATGACAAATCAACAACTAATGGACAACTGTCACCACATGATGGACGAAACTGACCAAGCTATTGAACGTTCAGAAAAGGTTGTCCATGAAACGGTAACTGTTGGGACGGAAACTACAGCAACCTTTAAAGCACAGGTTGCCAGCCT...

Protein

Download Protein FASTA

180 aa · TkA08G229090|TK1151|PROTEIN

MLPIPKKQYASNIENKRVDLFGGPGQGFEEDNGLLASSMTNQQLMDNCHHMMDETDQAIERSEKVVHETVTVGTETTATFKAQVASLLHDDVLDDVDTRFYACSHLFWVDDQDGIKDGERVLLCLKHALRIANPAQQMANVARGSSEPVTLFDEILNKEHIDHKWSNPRADRADQNRNAN

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	`TkA08G229090`
TK1151 ID	TkA08G229090
OH-1004 ID	LXL04_038736
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	75.300
Protein coverage (%)	TK1151 100.000 / OH-1004 54.926 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 TkA08G229090

Location Chr08:59663219-59671184 (-)

Description Similar to NPSN11: Novel plant SNARE 11

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g75850`	Plays a role in vesicular protein sorting.	Arabidopsis VPS35, a retromer component, is required for vacuolar protein sorting and involved in plant growth and leaf senescence.2008 · DOI: 10.1093/pcp/pcn006
`At2g35190`	t-SNARE involved in diverse vesicle trafficking and membrane fusion processes, including cell plate formation.	No verified direct reference in this release
`At2g17790`	Plays a role in vesicular protein sorting.	Loss-of-function mutations of retromer large subunit genes suppress the phenotype of an Arabidopsis zig mutant that lacks Qb-SNARE VTI11.2010 · DOI: 10.1105/tpc.109.069294
`At3g51310`	Plays a role in vesicular protein sorting.	No verified direct reference in this release
`At1g48240`	Vesicle trafficking protein that functions in the secretory pathway.	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_038736 · 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:0000911 cytokinesis by cell plate formation Biological Process

GO:0006886 intracellular protein transport Biological Process

GO:0006906 vesicle fusion Biological Process

GO:0015031 protein transport Biological Process

GO:0042147 retrograde transport, endosome to Golgi Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005770 late endosome Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

GO:0005794 Golgi apparatus Cellular Component

KEGG gene cross-reference

ath:AT1G48240

ath:AT1G75850

ath:AT2G17790

ath:AT2G35190

ath:AT3G17440

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.

Cytoplasm0.341

Rank 1 · TkA08G229090 · TK1151

Nucleus0.339

Rank 2 · TkA08G229090 · TK1151

Mitochondrion0.188

Rank 3 · TkA08G229090 · TK1151

Cell membrane0.099

Rank 4 · TkA08G229090 · TK1151

Plastid0.056

Rank 5 · TkA08G229090 · 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.

PF12352V-SNARE_C46-57 aa

PF12352V-SNARE_C55-88 aa

PF00348polyprenyl_synt83-99 aa

PF03635Vps35100-158 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA08G229090	`PF12352`	V-SNARE_C	46	57	0.1	13.6
TkA08G229090	`PF12352`	V-SNARE_C	55	88	0.1	13.6
TkA08G229090	`PF00348`	polyprenyl_synt	83	99	0.095	12.6
TkA08G229090	`PF03635`	Vps35	100	158	5e-09	36.0

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
`F4I0P8`	Arabidopsis thaliana	sp\|F4I0P8\|VP35B_ARATH Vacuolar protein sorting-associated protein 35B	70.300%	Swiss-Prot	Low
`Q944A9`	Arabidopsis thaliana	sp\|Q944A9\|NPS11_ARATH Novel plant SNARE 11	58.300%	Swiss-Prot	Low
`Q7X659`	Arabidopsis thaliana	sp\|Q7X659\|VP35A_ARATH Vacuolar protein sorting-associated protein 35A	74.100%	Swiss-Prot	Low
`A8R7K9`	Arabidopsis thaliana	sp\|A8R7K9\|VP35C_ARATH Vacuolar protein sorting-associated protein 35C	58.300%	Swiss-Prot	Low
`Q9LNH6`	Arabidopsis thaliana	sp\|Q9LNH6\|NPS12_ARATH Novel plant SNARE 12	44.300%	Swiss-Prot	Medium

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