TkA04G412270 | RubberDandelionOmics

Gene overview

TkA04G412270

Reference: TK1151 Chr: Chr04 Coordinates: 103833091-103835691 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

876 bp · TkA04G412270|TK1151|cDNA

TTAGAAGTAGGCTATTATTTTGGGACAAACCAAAAAGGAAAGATGGACTATTATTATGGGACGGAGGGAGTAATAAACTGATTTAGGATTAAACATAACATAACAGTCCTTTTCCAGACTCAGCGTCGGGAAGTGAACGACAGTCATCGCCTGCGATGATACGAGCGGTGATAATAATGAACGACGAAGGCAAGCCTCGCCTCGTCAAATTCTACGAACATCAGCCTGTGGAGAAACAACAAGAAATCATTCGTAGCATC...

CDS

Download CDS FASTA

501 bp · TkA04G412270|TK1151|CDS

ATGATACGAGCGGTGATAATAATGAACGACGAAGGCAAGCCTCGCCTCGTCAAATTCTACGAACATCAGCCTGTGGAGAAACAACAAGAAATCATTCGTAGCATCTATAGAGTTCTAAGCAGCAGAGCAGAGAATGTGAGCAATTTTGTTCAAGCAGATTCTACTTTTGGACAGGATACTCGACTTGTATACAAGACTTTTGCTACATTGTACTTCATTGTCATATTTGATGACTCTGAAAATGAGCTTGCCATTTTAGA...

Protein

Download Protein FASTA

166 aa · TkA04G412270|TK1151|PROTEIN

MIRAVIIMNDEGKPRLVKFYEHQPVEKQQEIIRSIYRVLSSRAENVSNFVQADSTFGQDTRLVYKTFATLYFIVIFDDSENELAILDLMQVFVETLDKCFSNVCELDIIFNFNKVHSILNEIILGGQVVEMNSSQVVKAVDEISSLERNPSSILRVSKSISGWQGR

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	`TkA04G412270`
TK1151 ID	TkA04G412270
OH-1004 ID	LXL04_024569
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	62.100
Protein coverage (%)	TK1151 96.988 / OH-1004 97.576 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

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Basic Information and Functional Annotation

Gene ID TkA04G412270

Location Chr04:103833091-103835691 (-)

Description Similar to At3g50860: AP-3 complex subunit sigma

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g50860`	Part of the AP-3 complex, an adaptor-related complex which seems to be clathrin-associated.	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_024569 · 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:0006886 intracellular protein transport Biological Process

GO:0006896 Golgi to vacuole transport Biological Process

GO:0016192 vesicle-mediated transport Biological Process

GO:0035654 clathrin-coated vesicle cargo loading, AP-3-mediated Biological Process

GO:0060155 platelet dense granule organization Biological Process

GO:0005769 early endosome Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0016020 membrane Cellular Component

GO:0030119 AP-type membrane coat adaptor complex Cellular Component

GO:0030123 AP-3 adaptor complex Cellular Component

GO:0030133 transport vesicle Cellular Component

KEGG gene cross-reference

ath:AT3G50860

bta:508867

bta:536359

hsa:1176

mmu:11777

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.

Cytoplasm0.526

Rank 1 · TkA04G412270 · TK1151

Golgi apparatus0.359

Rank 2 · TkA04G412270 · TK1151

Lysosome / Vacuole0.199

Rank 3 · TkA04G412270 · TK1151

Nucleus0.172

Rank 4 · TkA04G412270 · TK1151

Cell membrane0.114

Rank 5 · TkA04G412270 · TK1151

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.

PF01217Clat_adaptor_s1-145 aa

PF29961VPS71_M28-49 aa

PF19036Fuz_longin_150-101 aa

PF15001AP-5_subunit_s152-136 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G412270	`PF01217`	Clat_adaptor_s	1	145	3.6e-49	167.1
TkA04G412270	`PF29961`	VPS71_M	28	49	0.18	12.3
TkA04G412270	`PF19036`	Fuz_longin_1	50	101	0.011	16.7
TkA04G412270	`PF15001`	AP-5_subunit_s1	52	136	0.009	16.8

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
`Q8VZ37`	Arabidopsis thaliana	sp\|Q8VZ37\|AP3S_ARATH AP-3 complex subunit sigma	65.100%	Swiss-Prot	High

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