LXL04_016458 | RubberDandelionOmics

Gene overview

LXL04_016458

Reference: OH-1004 Chr: Chr03 Coordinates: 123744683-123752088 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3634 bp · LXL04_016458|LXL04_016458|OH1004|cDNA

ATGGCGAATTTCTTAGCTCAGTTTCTGTCGATCAAGAATTCTTGTGAACGCGTTGTCATTGCTGTTGAAGACGTGAGTGATTTATGGCCCCTTGTGAAGAAGGGATTTGAAGAACGCCTCCCAATTAGAAGAGCTACATTGAATAACAAAACCCGTAATCCTGTATCTGTGGATAATCTGCCAGCCGAGTTCATACTGACAACAGATTCAAGGCTCCGCAGTAGATTCCCCCAAGAACAATTATTATTCTCATTCCGAGA...

CDS

Download CDS FASTA

3600 bp · LXL04_016458|LXL04_016458|OH1004|CDS

ATGGCGAATTTCTTAGCTCAGTTTCTGTCGATCAAGAATTCTTGTGAACGCGTTGTCATTGCTGTTGAAGACGTGAGTGATTTATGGCCCCTTGTGAAGAAGGGATTTGAAGAACGCCTCCCAATTAGAAGAGCTACATTGAATAACAAAACCCGTAATCCTGTATCTGTGGATAATCTGCCAGCCGAGTTCATACTGACAACAGATTCAAGGCTCCGCAGTAGATTCCCCCAAGAACAATTATTATTCTCATTCCGAGA...

Protein

Download Protein FASTA

1199 aa · LXL04_016458|LXL04_016458|OH1004|PROTEIN

MANFLAQFLSIKNSCERVVIAVEDVSDLWPLVKKGFEERLPIRRATLNNKTRNPVSVDNLPAEFILTTDSRLRSRFPQEQLLFSFREPYATVVLVTCEDLDEFKTILKPRLKLITQNDEREWFIVFVSRAPPHNDHATKMAKKVYAKLEVDFSSKKRERCCKLDMHGPEATFWEDLEFKITECIRNTLDRRIQFYEEEIRKLSEQRFKPVWSFCNFFILKESLAFMFEMAHLHEDSLREYDELELCYLETVHIAGKQRDF...

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_016458`
TK1151 ID	TkA02G139070
OH-1004 ID	LXL04_016458
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	96.800
Protein coverage (%)	TK1151 98.328 / OH-1004 80.734 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

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Basic Information and Functional Annotation

Gene ID LXL04_016458

Location Chr03:123744683-123752088 (-)

Description Similar to TRS130: Trafficking protein particle complex II-specific subunit 130 homolog

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g54440`	Specific subunit of the TRAPP II complex, a highly conserved vesicle tethering complex that is required for the proper transport of proteins in post-Golgi trafficking pathways to the growing cell plate in mitotic active cells.	A putative TRAPPII tethering factor is required for cell plate assembly during cytokinesis in Arabidopsis.2010 · DOI: 10.1111/j.1469-8137.2010.03331.x A specific role for Arabidopsis TRAPPII in post-Golgi trafficking that is crucial for cytokinesis and cell polarity.2011 · DOI: 10.1111/j.1365-313x.2011.04681.x

Rice

Reference gene ID	Possible function	Papers / DOI
`Os12g0554400`	Specific subunit of the TRAPP II complex, a highly conserved vesicle tethering complex that is required for the proper transport of proteins in post-Golgi trafficking pathways to the growing cell plate in mitotic active cells.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_016458 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000911 cytokinesis by cell plate formation Biological Process

GO:0000919 cell plate assembly Biological Process

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

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

GO:0006901 vesicle coating Biological Process

GO:0034498 early endosome to Golgi transport Biological Process

GO:0099022 vesicle tethering Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005769 early endosome Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

KEGG gene cross-reference

ath:AT5G54440

ddi:DDB_G0273209

ddi:DDB_G0273719

dosa:Os12g0554400

hsa:7109

mmu:216131

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.

Cytoplasm0.566

Rank 1 · LXL04_016458 · OH-1004

Nucleus0.303

Rank 2 · LXL04_016458 · OH-1004

Golgi apparatus0.150

Rank 3 · LXL04_016458 · OH-1004

Lysosome / Vacuole0.079

Rank 4 · LXL04_016458 · OH-1004

Cell membrane0.077

Rank 5 · LXL04_016458 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF23036.3TRAPPC10_1st15-206 aa

PF30303.1TRAPPC10-Trs130_NTS313-673 aa

PF28381.1Ig_TRS130681-815 aa

PF12584.14TRAPPC10_C1104-1165 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_016458	`PF23036.3`	TRAPPC10_1st	15	206	1.7e-22	80.5
LXL04_016458	`PF30303.1`	TRAPPC10-Trs130_NTS	313	673	6.3e-193	641.6
LXL04_016458	`PF28381.1`	Ig_TRS130	681	815	3.4e-60	202.4
LXL04_016458	`PF12584.14`	TRAPPC10_C	1104	1165	1.8e-09	38.3

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
`F4K0C4`	Arabidopsis thaliana	Trafficking protein particle complex II-specific subunit 130 homolog	68.755%	Swiss-Prot	strong database homology
`Q2QNU0`	Oryza sativa subsp. japonica	Trafficking protein particle complex II-specific subunit 130 homolog	64.423%	Swiss-Prot	strong database homology

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