LXL04_039566 | RubberDandelionOmics

Gene overview

LXL04_039566

Reference: OH-1004 Chr: JAJTUU010000013.1 Coordinates: 1305571-1308764 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1767 bp · LXL04_039566|LXL04_039566|OH1004|cDNA

ATGACGCCGTACAATTCGCTTCTCCTAATCACACTCTCATCTCTCCTCATCTTCACCGTCGCCGGCCGTGTAATCACCACCACATCACCACCAAACACCATCTCCGACGGCGTTAACAATGGACCCGGAACCATTCTTCGTCTCAACGATCCCTTGATCATATCATCTGACGTCGACGACACAGTTGCGTCTTGCAAGCATACATATGGATTCATACCTTGCAGCAATGGATTTTTTCTCAGCCTCTGTCTTCTTTTGCT...

CDS

Download CDS FASTA

1767 bp · LXL04_039566|LXL04_039566|OH1004|CDS

ATGACGCCGTACAATTCGCTTCTCCTAATCACACTCTCATCTCTCCTCATCTTCACCGTCGCCGGCCGTGTAATCACCACCACATCACCACCAAACACCATCTCCGACGGCGTTAACAATGGACCCGGAACCATTCTTCGTCTCAACGATCCCTTGATCATATCATCTGACGTCGACGACACAGTTGCGTCTTGCAAGCATACATATGGATTCATACCTTGCAGCAATGGATTTTTTCTCAGCCTCTGTCTTCTTTTGCT...

Protein

Download Protein FASTA

588 aa · LXL04_039566|LXL04_039566|OH1004|PROTEIN

MTPYNSLLLITLSSLLIFTVAGRVITTTSPPNTISDGVNNGPGTILRLNDPLIISSDVDDTVASCKHTYGFIPCSNGFFLSLCLLLLYSYVIQVASSNLSDGSELLLHVLGPGVVGGLFLPIFGSVPEAMIILASGLAGSVEVAQGQVSIGMGLLAGSIVMLLTLIWGACVTTGKSDLEDSVAIDNQDTKASNDLTGSGVSTDIWTSYSAMIMVVSVIPLIVLQFPQIIHSTTGVQISVLVGLIFSVTLLVAYCVYQVIQ...

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_039566`
TK1151 ID	TkA04G337240
OH-1004 ID	LXL04_039566
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	96.300
Protein coverage (%)	TK1151 98.279 / OH-1004 96.939 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_039566

Location JAJTUU010000013.1:1305571-1308764 (-)

Description Similar to NCL: Sodium/calcium exchanger NCL

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g53210`	Possesses sodium/calcium exchanger (NCX) activity when expressed in a heterologous mammalian CHO-K1 cell system.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0247800`	May function as a sodium/calcium exchanger (NCX) and participate in the maintenance of calcium homeostasis.	No verified direct reference in this release
`Os01g0212400`	May function as a sodium/calcium exchanger (NCX) and participate in the maintenance of calcium homeostasis.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_039566 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006814 sodium ion transport Biological Process

GO:0006874 intracellular calcium ion homeostasis Biological Process

GO:0055074 calcium ion homeostasis Biological Process

GO:0070588 calcium ion transmembrane transport Biological Process

GO:0071472 cellular response to salt stress Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005773 vacuole Cellular Component

GO:0005774 vacuolar membrane Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0016020 membrane Cellular Component

KEGG gene cross-reference

ath:AT1G53210

dosa:Os01g0212400

dosa:Os02g0247800

osa:4325568

osa:4328874

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.

Cell membrane0.554

Rank 1 · LXL04_039566 · OH-1004

Lysosome / Vacuole0.213

Rank 2 · LXL04_039566 · OH-1004

Endoplasmic reticulum0.148

Rank 3 · LXL04_039566 · OH-1004

Cytoplasm0.080

Rank 4 · LXL04_039566 · OH-1004

Golgi apparatus0.050

Rank 5 · LXL04_039566 · OH-1004

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.

PF01699.30Na_Ca_ex81-260 aa

PF13499.13EF-hand_7304-367 aa

PF01699.30Na_Ca_ex427-571 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_039566	`PF01699.30`	Na_Ca_ex	81	260	1.4e-19	71.2
LXL04_039566	`PF13499.13`	EF-hand_7	304	367	3e-09	37.8
LXL04_039566	`PF01699.30`	Na_Ca_ex	427	571	1.4e-19	71.2

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q8L636`	Arabidopsis thaliana	Sodium/calcium exchanger NCL	51.268%	Swiss-Prot	strong database homology
`Q6K3R5`	Oryza sativa subsp. japonica	Sodium/calcium exchanger NCL2	52.652%	Swiss-Prot	strong database homology
`Q5QNI2`	Oryza sativa subsp. japonica	Sodium/calcium exchanger NCL1	48.108%	Swiss-Prot	moderate database homology

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