LXL04_019163 | RubberDandelionOmics

Gene overview

LXL04_019163

Reference: OH-1004 Chr: Chr04 Coordinates: 25108648-25112100 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1377 bp · LXL04_019163|LXL04_019163|OH1004|cDNA

ATGGCTTCCACTGAACCATGGTTGCTTGAAAACGGCACAGTCAAGAGGTTAACCAAGGAGGCCAGGCATGGCCATGGTCATAGTCGGACTGCCCATAATATGTCATCAACCTCCCTTCGTAGAAAGTCCGATATGTCCCTTGTCTCCAAAGTGCCTTGTGTAACCCTTAGAAAGTTCCTAGCCAATCTTCAAGAGGTCATTTTGGGTACAAAGTTATCAATCCTATTTATCGCAATTCCGTTTGCCATTGCTGCCAAATA...

CDS

Download CDS FASTA

1377 bp · LXL04_019163|LXL04_019163|OH1004|CDS

ATGGCTTCCACTGAACCATGGTTGCTTGAAAACGGCACAGTCAAGAGGTTAACCAAGGAGGCCAGGCATGGCCATGGTCATAGTCGGACTGCCCATAATATGTCATCAACCTCCCTTCGTAGAAAGTCCGATATGTCCCTTGTCTCCAAAGTGCCTTGTGTAACCCTTAGAAAGTTCCTAGCCAATCTTCAAGAGGTCATTTTGGGTACAAAGTTATCAATCCTATTTATCGCAATTCCGTTTGCCATTGCTGCCAAATA...

Protein

Download Protein FASTA

458 aa · LXL04_019163|LXL04_019163|OH1004|PROTEIN

MASTEPWLLENGTVKRLTKEARHGHGHSRTAHNMSSTSLRRKSDMSLVSKVPCVTLRKFLANLQEVILGTKLSILFIAIPFAIAAKYFGFARPWVFSLSLIGLMPLAERVSFLTEQIAYYTGPTVGGLLNATCGNATELIIAIFALMENKVDVVKYSLLGSILSNLLLVLGTSLLCGGIANMSSEQKFDRKQADVNIALLLLGLLCHVLPLMYRYAANESTTADALSTATATLNLSRASSVVMLVAYFAYLIFQLWTHRH...

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_019163`
TK1151 ID	TkA05G024790
OH-1004 ID	LXL04_019163
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	100.000
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_019163

Location Chr04:25108648-25112100 (+)

Description Similar to CAX3: Vacuolar cation/proton exchanger 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g51860`	Vacuolar cation/proton exchanger (CAX).	Functional association of Arabidopsis CAX1 and CAX3 is required for normal growth and ion homeostasis.2005 · DOI: 10.1104/pp.105.061218
`At2g38170`	Vacuolar cation/proton exchanger (CAX).	The Arabidopsis cax1 mutant exhibits impaired ion homeostasis, development, and hormonal responses and reveals interplay among vacuolar transporters.2003 · DOI: 10.1105/tpc.007385 Mutations in the Ca2+/H+ transporter CAX1 increase CBF/DREB1 expression and the cold-acclimation response in Arabidopsis.2003 · DOI: 10.1105/tpc.015248 Functional association of Arabidopsis CAX1 and CAX3 is required for normal growth and ion homeostasis.2005 · DOI: 10.1104/pp.105.061218
`At5g01490`	Vacuolar cation/proton exchanger (CAX).	Enhanced Cd2+ -selective root-tonoplast-transport in tobaccos expressing Arabidopsis cation exchangers.2007 · DOI: 10.1007/s00425-006-0352-7

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0557500`	Vacuolar cation/proton exchanger (CAX).	Expression profile of the genes for rice cation/H+ exchanger family and functional analysis in yeast.2005 · DOI: 10.1093/pcp/pci173
`Os05g0594200`	Vacuolar cation/proton exchanger (CAX).	Expression profile of the genes for rice cation/H+ exchanger family and functional analysis in yeast.2005 · DOI: 10.1093/pcp/pci173

Functional annotation source

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Functional annotation source: OH1004 · LXL04_019163 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006793 phosphorus metabolic process Biological Process

GO:0006812 monoatomic cation transport Biological Process

GO:0006816 calcium ion transport Biological Process

GO:0006874 intracellular calcium ion homeostasis Biological Process

GO:0006882 intracellular zinc ion homeostasis Biological Process

GO:0009624 response to nematode Biological Process

GO:0009631 cold acclimation Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009733 response to auxin Biological Process

GO:0010119 regulation of stomatal movement Biological Process

GO:0010351 lithium ion transport Biological Process

GO:0030026 intracellular manganese ion homeostasis Biological Process

KEGG gene cross-reference

ath:AT2G38170

ath:AT3G51860

ath:AT5G01490

dosa:Os01g0557500

dosa:Os05g0594200

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.

Cell membrane0.428

Rank 1 · LXL04_019163 · OH-1004

Lysosome / Vacuole0.286

Rank 2 · LXL04_019163 · OH-1004

Cytoplasm0.196

Rank 3 · LXL04_019163 · OH-1004

Golgi apparatus0.103

Rank 4 · LXL04_019163 · OH-1004

Endoplasmic reticulum0.093

Rank 5 · LXL04_019163 · 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.

PF01699.30Na_Ca_ex94-256 aa

PF01699.30Na_Ca_ex289-426 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_019163	`PF01699.30`	Na_Ca_ex	94	256	5.4e-43	147.3
LXL04_019163	`PF01699.30`	Na_Ca_ex	289	426	5.4e-43	147.3

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q93Z81`	Arabidopsis thaliana	Vacuolar cation/proton exchanger 3	69.079%	Swiss-Prot	strong database homology
`Q39253`	Arabidopsis thaliana	Vacuolar cation/proton exchanger 1	66.593%	Swiss-Prot	strong database homology
`Q945S5`	Arabidopsis thaliana	Vacuolar cation/proton exchanger 4	56.036%	Swiss-Prot	strong database homology
`Q769E5`	Oryza sativa subsp. japonica	Vacuolar cation/proton exchanger 1a	68.029%	Swiss-Prot	strong database homology
`Q5TKG3`	Oryza sativa subsp. japonica	Vacuolar cation/proton exchanger 1b	62.472%	Swiss-Prot	strong database homology

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