LXL04_000233 | RubberDandelionOmics

Gene overview

LXL04_000233

Reference: OH-1004 Chr: Chr01 Coordinates: 4395462-4400609 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

876 bp · LXL04_000233|LXL04_000233|OH1004|cDNA

ATGGCCGATTTACGGCTCCGACTGCGAAAGGAAGCTACGTTGCCCGTCGTGGATGGCGGTGGTGAAATGGTTGTAATCGGAAGCTTGACTTGTACCGTACGCTGTTGCCTGTTGCCCCACCAGCAGCTGGAAGAACTCATTGGAAAGATGCGGGAATGTAAAAGGCTTATTAAAGAGTTTGATAGAGAAGTCAAGGATTTAAAACATACAGTTGGCCCTGATACCAGCAAGATACTCAACGAAAAAAAACAATCAATGGT...

CDS

Download CDS FASTA

876 bp · LXL04_000233|LXL04_000233|OH1004|CDS

ATGGCCGATTTACGGCTCCGACTGCGAAAGGAAGCTACGTTGCCCGTCGTGGATGGCGGTGGTGAAATGGTTGTAATCGGAAGCTTGACTTGTACCGTACGCTGTTGCCTGTTGCCCCACCAGCAGCTGGAAGAACTCATTGGAAAGATGCGGGAATGTAAAAGGCTTATTAAAGAGTTTGATAGAGAAGTCAAGGATTTAAAACATACAGTTGGCCCTGATACCAGCAAGATACTCAACGAAAAAAAACAATCAATGGT...

Protein

Download Protein FASTA

291 aa · LXL04_000233|LXL04_000233|OH1004|PROTEIN

MADLRLRLRKEATLPVVDGGGEMVVIGSLTCTVRCCLLPHQQLEELIGKMRECKRLIKEFDREVKDLKHTVGPDTSKILNEKKQSMVKELNSYVALKKQYASNIENKRVDLFGGPGEGFEEDNGLLASSMTNQQVMDNCHHMMDETDQTIERSENVVHETVTVGTETAATLKAQVASLLHDDVPDDVDTRCDIANSDRGRASSCWENNANEHVDDQDGIKDGERVLLCLKHALRIANPAQQMANVARGSSEPVTLFDEIL...

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_000233`
TK1151 ID	TkA07G121940
OH-1004 ID	LXL04_000233
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	90.600
Protein coverage (%)	TK1151 78.981 / OH-1004 43.643 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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_000233

Location Chr01:4395462-4400609 (+)

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
`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_000233 · 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: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.

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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.

Cytoplasm0.496

Rank 1 · LXL04_000233 · OH-1004

Nucleus0.298

Rank 2 · LXL04_000233 · OH-1004

Mitochondrion0.134

Rank 3 · LXL04_000233 · OH-1004

Cell membrane0.130

Rank 4 · LXL04_000233 · OH-1004

Endoplasmic reticulum0.103

Rank 5 · LXL04_000233 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

No result was found for this query.

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q944A9`	Arabidopsis thaliana	Novel plant SNARE 11	59.286%	Swiss-Prot	weak database homology
`Q9LRP1`	Arabidopsis thaliana	Novel plant SNARE 13	57.971%	Swiss-Prot	weak database homology
`Q9LNH6`	Arabidopsis thaliana	Novel plant SNARE 12	52.941%	Swiss-Prot	moderate database homology
`F4I0P8`	Arabidopsis thaliana	Vacuolar protein sorting-associated protein 35B	56.989%	Swiss-Prot	weak database homology
`Q7X659`	Arabidopsis thaliana	Vacuolar protein sorting-associated protein 35A	45.161%	Swiss-Prot	weak database homology

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