TkA01G626850 | RubberDandelionOmics

Gene overview

TkA01G626850

Reference: TK1151 Chr: Chr01 Coordinates: 158218673-158221415 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

733 bp · TkA01G626850|TK1151|cDNA

AGAGCTTTAGGGACAACAATAATCGTCGCTAAAAAGTAGGCAGCTGGAAGAACTCATTGGAAAGATGCGGGAATGTAAAAGGCTTATTAAAGAGTTTGATAGAGAAGTCAAGGATTTAAAACATACAGTTGGCCCTGATACCAGCAAGATACTCAACGAAAAAAAACAATCAATGGTCAAAGAGTTGAACTCTTATGTTGCACTTAAAAAGCAATATGCAAGCAACATTGAAAACAAAAGAGTTGATTTGTTTGGAGGAC...

CDS

Download CDS FASTA

669 bp · TkA01G626850|TK1151|CDS

ATGCGGGAATGTAAAAGGCTTATTAAAGAGTTTGATAGAGAAGTCAAGGATTTAAAACATACAGTTGGCCCTGATACCAGCAAGATACTCAACGAAAAAAAACAATCAATGGTCAAAGAGTTGAACTCTTATGTTGCACTTAAAAAGCAATATGCAAGCAACATTGAAAACAAAAGAGTTGATTTGTTTGGAGGACCTGGTGAGGGATTTGAGGAAGATAATGGCTTGCTAGCCTCATCCATGACAAATCAACAACTAAT...

Protein

Download Protein FASTA

222 aa · TkA01G626850|TK1151|PROTEIN

MRECKRLIKEFDREVKDLKHTVGPDTSKILNEKKQSMVKELNSYVALKKQYASNIENKRVDLFGGPGEGFEEDNGLLASSMTNQQLMDNCHHMMDETDQTIERSEKVVHETVTVGTETAATLKAQVASLLHDDILDDVDTRFYACSHLFWVDDQDGIKDGERVLLCLKHALRIANPAQQMANVARGSSEPVTLFDEILNKEHIDHKWSNPRDDRADQNRNAN

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	`TkA01G626850`
TK1151 ID	TkA01G626850
OH-1004 ID	LXL04_038736
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	74.400
Protein coverage (%)	TK1151 100.000 / OH-1004 68.227 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 TkA01G626850

Location Chr01:158218673-158221415 (-)

Description Similar to NPSN11: Novel plant SNARE 11

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g35190`	t-SNARE involved in diverse vesicle trafficking and membrane fusion processes, including cell plate formation.	No verified direct reference in this release
`At3g17440`	Vesicle trafficking protein that functions in the secretory pathway.	No verified direct reference in this release
`At1g48240`	Vesicle trafficking protein that functions in the secretory pathway.	No verified direct reference in this release
`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
`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

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.

Cytoplasm0.365

Rank 1 · TkA01G626850 · TK1151

Nucleus0.218

Rank 2 · TkA01G626850 · TK1151

Endoplasmic reticulum0.206

Rank 3 · TkA01G626850 · TK1151

Golgi apparatus0.155

Rank 4 · TkA01G626850 · TK1151

Cell membrane0.124

Rank 5 · TkA01G626850 · 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.

PF14523Syntaxin_23-52 aa

PF11791Aconitase_B_N73-126 aa

PF14523Syntaxin_277-114 aa

PF12352V-SNARE_C88-99 aa

PF12352V-SNARE_C97-130 aa

PF00348polyprenyl_synt124-141 aa

PF03635Vps35141-200 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G626850	`PF14523`	Syntaxin_2	3	52	0.86	10.3
TkA01G626850	`PF11791`	Aconitase_B_N	73	126	0.12	13.1
TkA01G626850	`PF14523`	Syntaxin_2	77	114	0.86	10.3
TkA01G626850	`PF12352`	V-SNARE_C	88	99	0.059	14.4
TkA01G626850	`PF12352`	V-SNARE_C	97	130	0.059	14.4
TkA01G626850	`PF00348`	polyprenyl_synt	124	141	0.023	14.6
TkA01G626850	`PF03635`	Vps35	141	200	4.6e-09	36.1

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
`Q944A9`	Arabidopsis thaliana	sp\|Q944A9\|NPS11_ARATH Novel plant SNARE 11	60.300%	Swiss-Prot	Medium
`Q9LRP1`	Arabidopsis thaliana	sp\|Q9LRP1\|NPS13_ARATH Novel plant SNARE 13	58.100%	Swiss-Prot	Medium
`Q9LNH6`	Arabidopsis thaliana	sp\|Q9LNH6\|NPS12_ARATH Novel plant SNARE 12	52.100%	Swiss-Prot	Medium
`F4I0P8`	Arabidopsis thaliana	sp\|F4I0P8\|VP35B_ARATH Vacuolar protein sorting-associated protein 35B	84.500%	Swiss-Prot	Low
`Q7X659`	Arabidopsis thaliana	sp\|Q7X659\|VP35A_ARATH Vacuolar protein sorting-associated protein 35A	74.100%	Swiss-Prot	Low

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