TkA04G050680 | RubberDandelionOmics

Gene overview

TkA04G050680

Reference: TK1151 Chr: Chr04 Coordinates: 13575769-13576209 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

354 bp · TkA04G050680|TK1151|cDNA

ATGGCTCTACCACCGAATTCGACGATGAGCGGCGTCAATGGAACAATCGGAACGGCACATCGAAAGAAGATGATGATGCACATGACCTTCTATTGGGGAAAAGACGCTTTAATCCTCTTTACAGGGTGGCCTGGTCCTGATAATAAATCCGATGACGTGTCATCTGGTTTGGCTCAGACATTGGTGTACGGCTTACGTGTAGGGTTTGCTTTCATGGTGATGTTGGCTTTGATGTCGTTTAATGTTGGAGTGTTTTTGGT...

CDS

Download CDS FASTA

354 bp · TkA04G050680|TK1151|CDS

ATGGCTCTACCACCGAATTCGACGATGAGCGGCGTCAATGGAACAATCGGAACGGCACATCGAAAGAAGATGATGATGCACATGACCTTCTATTGGGGAAAAGACGCTTTAATCCTCTTTACAGGGTGGCCTGGTCCTGATAATAAATCCGATGACGTGTCATCTGGTTTGGCTCAGACATTGGTGTACGGCTTACGTGTAGGGTTTGCTTTCATGGTGATGTTGGCTTTGATGTCGTTTAATGTTGGAGTGTTTTTGGT...

Protein

Download Protein FASTA

117 aa · TkA04G050680|TK1151|PROTEIN

MALPPNSTMSGVNGTIGTAHRKKMMMHMTFYWGKDALILFTGWPGPDNKSDDVSSGLAQTLVYGLRVGFAFMVMLALMSFNVGVFLVAVLGHAVGFFFFRVVIQSQEKKAEMLAAAC

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	`TkA04G050680`
TK1151 ID	TkA04G050680
OH-1004 ID	LXL04_036388
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	78.800
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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 TkA04G050680

Location Chr04:13575769-13576209 (-)

Description Similar to COPT6: Copper transporter 6

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g26975`	Involved in the transport of copper.	No verified direct reference in this release
`At3g46900`	Involved in the transport of copper.	Identification of a copper transporter family in Arabidopsis thaliana.2003 · DOI: 10.1023/a:1022345507112
`At5g59030`	Copper transporter involved in copper acquisition and transport in leaves.	Identification of a copper transporter family in Arabidopsis thaliana.2003 · DOI: 10.1023/a:1022345507112 The Arabidopsis copper transporter COPT1 functions in root elongation and pollen development.2004 · DOI: 10.1074/jbc.m313321200 Molecular characterization of a putative Arabidopsis thaliana copper transporter and its yeast homologue.1995 · DOI: 10.1074/jbc.270.47.28479
`At5g59040`	Involved in the transport of copper.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0770800`	Involved in the transport of copper.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_036388 · 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:0006825 copper ion transport Biological Process

GO:0006952 defense response Biological Process

GO:0035434 copper ion transmembrane transport Biological Process

GO:0048235 pollen sperm cell differentiation Biological Process

GO:0048364 root development Biological Process

GO:0098705 copper ion import across plasma membrane Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0016020 membrane Cellular Component

GO:0005375 copper ion transmembrane transporter activity Molecular Function

GO:0015089 high-affinity copper ion transmembrane transporter activity Molecular Function

GO:0051119 sugar transmembrane transporter activity Molecular Function

KEGG gene cross-reference

ath:AT2G26975

ath:AT2G37925

ath:AT3G46900

ath:AT5G59030

dosa:Os01g0770700

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.

Endoplasmic reticulum0.300

Rank 1 · TkA04G050680 · TK1151

Golgi apparatus0.183

Rank 2 · TkA04G050680 · TK1151

Cell membrane0.176

Rank 3 · TkA04G050680 · TK1151

Cytoplasm0.164

Rank 4 · TkA04G050680 · TK1151

Lysosome / Vacuole0.155

Rank 5 · TkA04G050680 · 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.

PF04145Ctr28-43 aa

PF04145Ctr54-99 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G050680	`PF04145`	Ctr	28	43	6.3e-09	37.3
TkA04G050680	`PF04145`	Ctr	54	99	6.3e-09	37.3

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
`Q8GWP3`	Arabidopsis thaliana	sp\|Q8GWP3\|COPT6_ARATH Copper transporter 6	41.300%	Swiss-Prot	Medium
`Q9STG2`	Arabidopsis thaliana	sp\|Q9STG2\|COPT2_ARATH Copper transporter 2	42.900%	Swiss-Prot	Medium
`Q39065`	Arabidopsis thaliana	sp\|Q39065\|COPT1_ARATH Copper transporter 1	43.800%	Swiss-Prot	Medium
`Q9FGU8`	Arabidopsis thaliana	sp\|Q9FGU8\|COPT3_ARATH Copper transporter 3	37.900%	Swiss-Prot	Medium
`Q5ZD08`	Oryza sativa subsp. japonica	sp\|Q5ZD08\|COPT3_ORYSJ Copper transporter 3	41.300%	Swiss-Prot	Medium

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