LXL04_015338 | RubberDandelionOmics

Gene overview

LXL04_015338

Reference: OH-1004 Chr: Chr03 Coordinates: 68859498-68862236 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

822 bp · LXL04_015338|LXL04_015338|OH1004|cDNA

ATGGCGAACCCGGATTTGCAAATGAACGTTCAAATGGAGCAGATCCATGGAGAAATCCGTGACAATTTTCGAGCCCTCGCCAATGGGTTTCAGAAGCTGGACAAGATTAAAGATTCCACCAGACAAAGTAAACAATTGGAGGATCTTACAGGAAAGATGAGAGAGTGTAAAAGGTTGATCAAAGAGTTTGACCGTGAAATCAAAGAGGAGGAAAGTAAAAATCCTCCAGAAGTCAGCAAGAAACTCAATGATGAGAAACA...

CDS

Download CDS FASTA

822 bp · LXL04_015338|LXL04_015338|OH1004|CDS

ATGGCGAACCCGGATTTGCAAATGAACGTTCAAATGGAGCAGATCCATGGAGAAATCCGTGACAATTTTCGAGCCCTCGCCAATGGGTTTCAGAAGCTGGACAAGATTAAAGATTCCACCAGACAAAGTAAACAATTGGAGGATCTTACAGGAAAGATGAGAGAGTGTAAAAGGTTGATCAAAGAGTTTGACCGTGAAATCAAAGAGGAGGAAAGTAAAAATCCTCCAGAAGTCAGCAAGAAACTCAATGATGAGAAACA...

Protein

Download Protein FASTA

273 aa · LXL04_015338|LXL04_015338|OH1004|PROTEIN

MANPDLQMNVQMEQIHGEIRDNFRALANGFQKLDKIKDSTRQSKQLEDLTGKMRECKRLIKEFDREIKEEESKNPPEVSKKLNDEKQSMIKELNSYVALRKTYQSTLGNKRVELFDMGAGASEPMAEDNAQVASEMSNQELVHAGRQTMNETDQAIERSKQVVQQTVEVGTQTAANLKGQTDQMGRIVNELDTIQFSIKKASQLVKEIGRQVATDKCIMLFLFLIVCGVIAIIIVKIVNPHNKDIRDIPGLAPPVPASRR...

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	`LXL04_015338`
TK1151 ID	TkAUNG051920
OH-1004 ID	LXL04_015338
Relationship / confidence	Rbh High Identity Coverage Local Synteny Minor Chr Pair / Probable
Protein identity (%)	99.300
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	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_015338

Location Chr03:68859498-68862236 (+)

Description Similar to NPSN13: Novel plant SNARE 13

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`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
`At2g35190`	t-SNARE involved in diverse vesicle trafficking and membrane fusion processes, including cell plate formation.	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_015338 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000911 cytokinesis by cell plate formation Biological Process

GO:0006886 intracellular protein transport Biological Process

GO:0006891 intra-Golgi vesicle-mediated transport Biological Process

GO:0006896 Golgi to vacuole transport Biological Process

GO:0006906 vesicle fusion Biological Process

GO:0015031 protein transport Biological Process

GO:0016236 macroautophagy Biological Process

GO:0042147 retrograde transport, endosome to Golgi Biological Process

GO:0048280 vesicle fusion with Golgi apparatus Biological Process

GO:1903076 regulation of protein localization to plasma membrane Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

KEGG gene cross-reference

ath:AT1G48240

ath:AT2G35190

ath:AT3G17440

bta:780809

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.

Cytoplasm0.350

Rank 1 · LXL04_015338 · OH-1004

Cell membrane0.331

Rank 2 · LXL04_015338 · OH-1004

Golgi apparatus0.258

Rank 3 · LXL04_015338 · OH-1004

Lysosome / Vacuole0.228

Rank 4 · LXL04_015338 · OH-1004

Endoplasmic reticulum0.147

Rank 5 · LXL04_015338 · OH-1004

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.

PF03908.19Sec20154-230 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_015338	`PF03908.19`	Sec20	154	230	1.9e-07	31.6

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
`Q9LRP1`	Arabidopsis thaliana	Novel plant SNARE 13	83.969%	Swiss-Prot	strong database homology
`Q9LNH6`	Arabidopsis thaliana	Novel plant SNARE 12	80.153%	Swiss-Prot	strong database homology
`Q944A9`	Arabidopsis thaliana	Novel plant SNARE 11	66.148%	Swiss-Prot	strong database homology

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