LXL04_029154 | RubberDandelionOmics

Gene overview

LXL04_029154

Reference: OH-1004 Chr: Chr06 Coordinates: 81962539-81964592 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1179 bp · LXL04_029154|LXL04_029154|OH1004|cDNA

ATGAAGCAAACTCCATCCGCCCAAAAGATGGATTCTCAGAACCCTGAACATGAACACAGACACACTGTTGACATATCAGCAGCCGTACCACCTGAAGAAAACCGCCAAACTACAAACAAAGTCTGTGGTGGAGCACCATGCGGATTCTCAGATTCCAACACAACTTCCATGGAAGCAAAAGAACGTTCAGCTTCCATGTGGAAGCTCTGGTGTGGTGTCATCTTATGCGTCATCTTCATGAGTGTAGAAGTAGTAGGTGG...

CDS

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1179 bp · LXL04_029154|LXL04_029154|OH1004|CDS

ATGAAGCAAACTCCATCCGCCCAAAAGATGGATTCTCAGAACCCTGAACATGAACACAGACACACTGTTGACATATCAGCAGCCGTACCACCTGAAGAAAACCGCCAAACTACAAACAAAGTCTGTGGTGGAGCACCATGCGGATTCTCAGATTCCAACACAACTTCCATGGAAGCAAAAGAACGTTCAGCTTCCATGTGGAAGCTCTGGTGTGGTGTCATCTTATGCGTCATCTTCATGAGTGTAGAAGTAGTAGGTGG...

Protein

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392 aa · LXL04_029154|LXL04_029154|OH1004|PROTEIN

MKQTPSAQKMDSQNPEHEHRHTVDISAAVPPEENRQTTNKVCGGAPCGFSDSNTTSMEAKERSASMWKLWCGVILCVIFMSVEVVGGIKANSLAILTDAAHLLSDVAAFAISIFSVWASGWEATPRQSYGFFRIEILGTLVSIQIIWLLTGILVYEAIERLLYGTLEVQGSLMFGISAFGLVVNIIMIFVLGHEHGHGHSHGHGVSVTTHDHHHGHDDDHHHHGHGHDQNQPLLKTYSSQETKEKKRGNINVQGAFLHVL...

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_029154`
TK1151 ID	TkA07G283020
OH-1004 ID	LXL04_029154
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	92.300
Protein coverage (%)	TK1151 97.810 / OH-1004 97.704 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_029154

Location Chr06:81962539-81964592 (+)

Description Similar to MTP1: Metal tolerance protein 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g46800`	Mediates zinc accumulation in roots and confers resistance to zinc.	Zinc transporter of Arabidopsis thaliana AtMTP1 is localized to vacuolar membranes and implicated in zinc homeostasis.2004 · DOI: 10.1093/pcp/pci015 A mutant strain Arabidopsis thaliana that lacks vacuolar membrane zinc transporter MTP1 revealed the latent tolerance to excessive zinc.2009 · DOI: 10.1093/pcp/pcp067 A mutation in the Arabidopsis thaliana cell wall biosynthesis gene pectin methylesterase 3 as well as its aberrant expression cause hypersensitivity specifically to Zn.2013 · DOI: 10.1111/tpj.12279
`At3g58810`	Involved in sequestration of excess zinc in the cytoplasm into vacuoles to maintain zinc homeostasis.	The Arabidopsis metal tolerance protein AtMTP3 maintains metal homeostasis by mediating Zn exclusion from the shoot under Fe deficiency and Zn oversupply.2006 · DOI: 10.1111/j.1365-313x.2006.02746.x
`At3g61940`	Involved in sequestration of excess zinc in the cytoplasm into vacuoles to maintain zinc homeostasis.	No verified direct reference in this release
`At2g29410`	Involved in sequestration of excess zinc in the cytoplasm into vacuoles to maintain zinc homeostasis.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os05g0128400`	Involved in sequestration of excess zinc in the cytoplasm into vacuoles to maintain zinc homeostasis.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_029154 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006829 zinc ion transport Biological Process

GO:0006882 intracellular zinc ion homeostasis Biological Process

GO:0010038 response to metal ion Biological Process

GO:0010043 response to zinc ion Biological Process

GO:0010312 detoxification of zinc ion Biological Process

GO:0030001 metal ion transport Biological Process

GO:0071577 zinc ion transmembrane transport Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005773 vacuole Cellular Component

GO:0005774 vacuolar membrane Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

KEGG gene cross-reference

ath:AT2G29410

ath:AT2G46800

ath:AT3G58810

ath:AT3G61940

dosa:Os05g0128400

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.

Lysosome / Vacuole0.351

Rank 1 · LXL04_029154 · OH-1004

Cytoplasm0.281

Rank 2 · LXL04_029154 · OH-1004

Golgi apparatus0.261

Rank 3 · LXL04_029154 · OH-1004

Cell membrane0.207

Rank 4 · LXL04_029154 · OH-1004

Endoplasmic reticulum0.149

Rank 5 · LXL04_029154 · 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.

PF01545.27Cation_efflux70-313 aa

PF16916.12ZT_dimer317-391 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_029154	`PF01545.27`	Cation_efflux	70	313	9.9e-44	150.2
LXL04_029154	`PF16916.12`	ZT_dimer	317	391	2.1e-12	47.6

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
`Q9ZT63`	Arabidopsis thaliana	Metal tolerance protein 1	63.500%	Swiss-Prot	strong database homology
`Q9LXS1`	Arabidopsis thaliana	Metal tolerance protein A2	67.196%	Swiss-Prot	strong database homology
`Q9M271`	Arabidopsis thaliana	Metal tolerance protein A1	63.842%	Swiss-Prot	strong database homology
`Q6DBM8`	Arabidopsis thaliana	Metal tolerance protein B	41.713%	Swiss-Prot	moderate database homology
`Q688R1`	Oryza sativa subsp. japonica	Metal tolerance protein 1	63.507%	Swiss-Prot	strong database homology

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