LXL04_004359 | RubberDandelionOmics

Gene overview

LXL04_004359

Reference: OH-1004 Chr: Chr01 Coordinates: 133384173-133386319 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1215 bp · LXL04_004359|LXL04_004359|OH1004|cDNA

ATGGAAGAGGGAAAAGAGGCGTTGTTGTCGCCGACGACACCCGGAGGTGGTAGGCGGGGACGGCGGTTGAGTAGGCGGTACTCCGTGAACTCACTCAGGAGCGATTTGTTGGCTCGGCTACCTGATAAGGTCCGTTCTGCTGTTGATATCGAATGTTCTTCACCTTTCGCTCTACCGTCTAAATCATCAGCTTCTCTAACTCAAGGTGAAAGGGAGTATTATGAAAAGCAATTTGCAACATTAAAGTCTTTTGAGGAAGT...

CDS

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1215 bp · LXL04_004359|LXL04_004359|OH1004|CDS

ATGGAAGAGGGAAAAGAGGCGTTGTTGTCGCCGACGACACCCGGAGGTGGTAGGCGGGGACGGCGGTTGAGTAGGCGGTACTCCGTGAACTCACTCAGGAGCGATTTGTTGGCTCGGCTACCTGATAAGGTCCGTTCTGCTGTTGATATCGAATGTTCTTCACCTTTCGCTCTACCGTCTAAATCATCAGCTTCTCTAACTCAAGGTGAAAGGGAGTATTATGAAAAGCAATTTGCAACATTAAAGTCTTTTGAGGAAGT...

Protein

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404 aa · LXL04_004359|LXL04_004359|OH1004|PROTEIN

MEEGKEALLSPTTPGGGRRGRRLSRRYSVNSLRSDLLARLPDKVRSAVDIECSSPFALPSKSSASLTQGEREYYEKQFATLKSFEEVDAIVSSEGIDEEDLDEQLQQERAMKVSNYANILLLAFKIYTTIETGSIAIAASTLDSLLDLMAGGILWFTHLSMQNINIYKYPIGKLRVQPVGIIIFAAIMATLGFQVLIQAVEQLIENNPPEKMSSLQLLWLYVIMLTATIVKLALWLYCKSSGNEIVRAYAKDHYFDVVTN...

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_004359`
TK1151 ID	TkA01G162490
OH-1004 ID	LXL04_004359
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.300
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	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_004359

Location Chr01:133384173-133386319 (-)

Description Similar to MTP4: Metal tolerance protein 4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g58060`	Involved in sequestration of excess metal in the cytoplasm into vacuoles to maintain metal homeostasis.	No verified direct reference in this release
`At1g79520`	Involved in sequestration of excess metal in the cytoplasm into vacuoles to maintain metal homeostasis.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0226400`	Involved in sequestration of excess metal in the cytoplasm into vacuoles to maintain metal homeostasis.	No verified direct reference in this release
`Os02g0775100`	Involved in sequestration of excess metal in the cytoplasm into vacuoles to maintain metal homeostasis.	No verified direct reference in this release
`Os01g0837800`	Involved in sequestration of excess metal in the cytoplasm into vacuoles to maintain metal homeostasis.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_004359 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006826 iron ion transport Biological Process

GO:0009845 seed germination Biological Process

GO:0048316 seed development Biological Process

GO:0071421 manganese ion transmembrane transport Biological Process

GO:0005634 nucleus Cellular Component

GO:0005774 vacuolar membrane Cellular Component

GO:0009705 plant-type vacuole membrane Cellular Component

GO:0016020 membrane Cellular Component

GO:0035618 root hair Cellular Component

GO:0005384 manganese ion transmembrane transporter activity Molecular Function

GO:0008324 monoatomic cation transmembrane transporter activity Molecular Function

GO:0010486 manganese:proton antiporter activity Molecular Function

KEGG gene cross-reference

ath:AT1G79520

ath:AT3G58060

dosa:Os01g0837800

dosa:Os02g0775100

dosa:Os03g0226400

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.

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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 apparatus0.350

Rank 1 · LXL04_004359 · OH-1004

Cytoplasm0.297

Rank 2 · LXL04_004359 · OH-1004

Endoplasmic reticulum0.253

Rank 3 · LXL04_004359 · OH-1004

Lysosome / Vacuole0.202

Rank 4 · LXL04_004359 · OH-1004

Cell membrane0.162

Rank 5 · LXL04_004359 · 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_efflux112-305 aa

PF16916.12ZT_dimer310-384 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_004359	`PF01545.27`	Cation_efflux	112	305	1.3e-27	97.6
LXL04_004359	`PF16916.12`	ZT_dimer	310	384	4.3e-10	40.2

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
`Q9M2P2`	Arabidopsis thaliana	Putative metal tolerance protein C3	70.833%	Swiss-Prot	strong database homology
`Q9SAJ7`	Arabidopsis thaliana	Metal tolerance protein 9	56.402%	Swiss-Prot	strong database homology
`Q10PP8`	Oryza sativa subsp. japonica	Metal tolerance protein 4	74.869%	Swiss-Prot	strong database homology
`Q6Z7K5`	Oryza sativa subsp. japonica	Metal tolerance protein 3	69.674%	Swiss-Prot	strong database homology
`Q5NA18`	Oryza sativa subsp. japonica	Metal tolerance protein 5	53.501%	Swiss-Prot	strong database homology

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