TkAUNG088710 | RubberDandelionOmics

Gene overview

TkAUNG088710

Reference: TK1151 Chr: ChrUn Coordinates: 25180237-25185475 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1422 bp · TkAUNG088710|TK1151|cDNA

ATCAGAAGGAGCCTGAAACGCTGCTGTGCCTTAACAAGAAACCAGACACTTCTAAATTTATTCAAGGTGTTCAAGAGAGTTCTTAGAGCTTATGCTACAAAGCTTTTCATAAAGTTGCCTAAAGGTGGCATGGGGATTGTTGCAGCTGCCACGGGTATGGATGGACACATTAAGACATCTGATAAAGACGAAAGGCTCATATGCTATATAGTCAACACTGCAGAATATTGTCGTAAAACGGCTGGTGAGTTGGCTGAAAA...

CDS

Download CDS FASTA

1146 bp · TkAUNG088710|TK1151|CDS

ATCAGAAGGAGCCTGAAACGCTGCTGTGCCTTAACAAGAAACCAGACACTTCTAAATTTATTCAAGGTGTTCAAGAGAGTTCTTAGAGCTTATGCTACAAAGCTTTTCATAAAGTTGCCTAAAGGTGGCATGGGGATTGTTGCAGCTGCCACGGGTATGGATGGACACATTAAGACATCTGATAAAGACGAAAGGCTCATATGCTATATAGTCAACACTGCAGAATATTGTCGTAAAACGGCTGGTGAGTTGGCTGAAAA...

Protein

Download Protein FASTA

381 aa · TkAUNG088710|TK1151|PROTEIN

IRRSLKRCCALTRNQTLLNLFKVFKRVLRAYATKLFIKLPKGGMGIVAAATGMDGHIKTSDKDERLICYIVNTAEYCRKTAGELAENVLKIIDSQLADSVDMSEVQDEFSGVITKALVTLVHGVETKFDVEMAAMTRVPWGTLESVGDQSEYVNSINKTLSGCVPVLGSLLSPVYFQFFLDKLASSLGPRFYLNIFKCKQISETGAQQMLLDTQAVKTILLDIPSLGRQALGAAGYSKFVSREMSKAEALLKVILSPIDS...

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	`TkAUNG088710`
TK1151 ID	TkAUNG088710
OH-1004 ID	LXL04_026818
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	81.600
Protein coverage (%)	TK1151 99.738 / OH-1004 47.016 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

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkAUNG088710

Location ChrUn:25180237-25185475 (-)

Description Similar to VPS53: Vacuolar protein sorting-associated protein 53 A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g50500`	Acts as a component of the GARP complex that is involved in retrograde transport from early and late endosomes to the trans-Golgi network (TGN).	Mutation in a homolog of yeast Vps53p accounts for the heat and osmotic hypersensitive phenotypes in Arabidopsis hit1-1 mutant.2006 · DOI: 10.1007/s00425-005-0216-6 The POK/AtVPS52 protein localizes to several distinct post-Golgi compartments in sporophytic and gametophytic cells.2008 · DOI: 10.1093/jxb/ern162 Involvement of the Arabidopsis HIT1/AtVPS53 tethering protein homologue in the acclimation of the plasma membrane to heat stress.2011 · DOI: 10.1093/jxb/err060 The Arabidopsis hit1-1 mutant has a plasma membrane profile distinct from that of wild-type plants at optimal growing temperature.2011 · DOI: 10.4161/psb.6.8.15842

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026818 · 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:0006622 protein targeting to lysosome Biological Process

GO:0006890 retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum Biological Process

GO:0006970 response to osmotic stress Biological Process

GO:0007009 plasma membrane organization Biological Process

GO:0007041 lysosomal transport Biological Process

GO:0009408 response to heat Biological Process

GO:0010286 heat acclimation Biological Process

GO:0015031 protein transport Biological Process

GO:0032456 endocytic recycling Biological Process

GO:0042147 retrograde transport, endosome to Golgi Biological Process

GO:0090119 vesicle-mediated cholesterol transport Biological Process

GO:0000139 Golgi membrane Cellular Component

KEGG gene cross-reference

ath:AT1G50500

ath:AT1G50970

mmu:68299

pon:100173757

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.

Cytoplasm0.533

Rank 1 · TkAUNG088710 · TK1151

Golgi apparatus0.461

Rank 2 · TkAUNG088710 · TK1151

Cell membrane0.164

Rank 3 · TkAUNG088710 · TK1151

Endoplasmic reticulum0.142

Rank 4 · TkAUNG088710 · TK1151

Lysosome / Vacuole0.111

Rank 5 · TkAUNG088710 · 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.

PF04437RINT1_TIP1113-224 aa

PF16854VPS53_C208-286 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkAUNG088710	`PF04437`	RINT1_TIP1	113	224	0.008	15.8
TkAUNG088710	`PF16854`	VPS53_C	208	286	2.3e-13	51.3

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
`Q0WQF4`	Arabidopsis thaliana	sp\|Q0WQF4\|VP53A_ARATH Vacuolar protein sorting-associated protein 53 A	77.300%	Swiss-Prot	High

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