TkA06G028400 | RubberDandelionOmics

Gene overview

TkA06G028400

Reference: TK1151 Chr: Chr06 Coordinates: 7696307-7696933 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

597 bp · TkA06G028400|TK1151|cDNA

ATGTCGAAGAACTCAACCGCCGGTTATGGCACACTCCCCACCAGCACCGCCCCCACCATAGCCGCTCTTCCGACATCACCCAACACACTAATCGCACGTGCGAGGTTCCACACGGAAAACTTTATCGCGAGGCGTCGGCCATGGCGAGAATTCTTCAACCACAACGCCGTCGCTCGGCCACTAAGCTACGACGACACCACCCGCCGACTCAAACGGAACCTCAACTACTTCCGAGTGAATTACGCGATGGTGATCCTCCT...

CDS

Download CDS FASTA

597 bp · TkA06G028400|TK1151|CDS

ATGTCGAAGAACTCAACCGCCGGTTATGGCACACTCCCCACCAGCACCGCCCCCACCATAGCCGCTCTTCCGACATCACCCAACACACTAATCGCACGTGCGAGGTTCCACACGGAAAACTTTATCGCGAGGCGTCGGCCATGGCGAGAATTCTTCAACCACAACGCCGTCGCTCGGCCACTAAGCTACGACGACACCACCCGCCGACTCAAACGGAACCTCAACTACTTCCGAGTGAATTACGCGATGGTGATCCTCCT...

Protein

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198 aa · TkA06G028400|TK1151|PROTEIN

MSKNSTAGYGTLPTSTAPTIAALPTSPNTLIARARFHTENFIARRRPWREFFNHNAVARPLSYDDTTRRLKRNLNYFRVNYAMVILLILFLSLIYQPVSMITFLIVFVGWFFLYFFRDPRSPVVMFNHVFDDRVVLMTLSLLTIFALACTNVGTILLVALSVGAGVVVLHAGIRGTDDLFLDEQEAGDGGLVSVVGNK

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	`TkA06G028400`
TK1151 ID	TkA06G028400
OH-1004 ID	LXL04_029262
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	63.700
Protein coverage (%)	TK1151 99.495 / OH-1004 94.811 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 TkA06G028400

Location Chr06:7696307-7696933 (+)

Description Similar to PRA1E: PRA1 family protein E

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g08770`	May be involved in both secretory and endocytic intracellular trafficking in the endosomal/prevacuolar compartments.	No verified direct reference in this release
`At2g40380`	May be involved in both secretory and endocytic intracellular trafficking in the endosomal/prevacuolar compartments.	No verified direct reference in this release
`At1g55190`	May be involved in both secretory and endocytic intracellular trafficking in the endosomal/prevacuolar compartments.	No verified direct reference in this release
`At5g05380`	May be involved in both secretory and endocytic intracellular trafficking in the endosomal/prevacuolar compartments.	No verified direct reference in this release
`At3g13720`	May be involved in both secretory and endocytic intracellular trafficking in the endosomal/prevacuolar compartments.	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_029262 · 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:0016192 vesicle-mediated transport Biological Process

GO:0000138 Golgi trans cisterna Cellular Component

GO:0000325 plant-type vacuole Cellular Component

GO:0005768 endosome Cellular Component

GO:0005774 vacuolar membrane Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0010008 endosome membrane Cellular Component

KEGG gene cross-reference

ath:AT1G08770

ath:AT1G55190

ath:AT2G38360

ath:AT3G13710

ath:AT3G56110

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.

Golgi apparatus0.422

Rank 1 · TkA06G028400 · TK1151

Endoplasmic reticulum0.251

Rank 2 · TkA06G028400 · TK1151

Cytoplasm0.236

Rank 3 · TkA06G028400 · TK1151

Lysosome / Vacuole0.147

Rank 4 · TkA06G028400 · TK1151

Cell membrane0.096

Rank 5 · TkA06G028400 · 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.

PF03208PRA142-184 aa

PF24648DUF764164-115 aa

PF14256YwiC69-107 aa

PF09946DUF217874-119 aa

PF14256YwiC81-155 aa

PF09946DUF2178138-184 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G028400	`PF03208`	PRA1	42	184	1e-46	158.8
TkA06G028400	`PF24648`	DUF7641	64	115	0.94	10.5
TkA06G028400	`PF14256`	YwiC	69	107	1.6	9.7
TkA06G028400	`PF09946`	DUF2178	74	119	4.9	7.9
TkA06G028400	`PF14256`	YwiC	81	155	1.6	9.7
TkA06G028400	`PF09946`	DUF2178	138	184	4.9	7.9

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
`Q9FRR1`	Arabidopsis thaliana	sp\|Q9FRR1\|PRA1E_ARATH PRA1 family protein E	48.800%	Swiss-Prot	Medium
`Q9SIY7`	Arabidopsis thaliana	sp\|Q9SIY7\|PR1B2_ARATH PRA1 family protein B2	40.800%	Swiss-Prot	Medium
`Q9C889`	Arabidopsis thaliana	sp\|Q9C889\|PR1F2_ARATH PRA1 family protein F2	42.700%	Swiss-Prot	Medium
`Q9FLB6`	Arabidopsis thaliana	sp\|Q9FLB6\|PR1B3_ARATH PRA1 family protein B3	40.700%	Swiss-Prot	Medium
`Q9LIC6`	Arabidopsis thaliana	sp\|Q9LIC6\|PR1F3_ARATH PRA1 family protein F3	41.600%	Swiss-Prot	Medium

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