LXL04_032713 | RubberDandelionOmics

Gene overview

LXL04_032713

Reference: OH-1004 Chr: Chr07 Coordinates: 28236412-28243524 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2379 bp · LXL04_032713|LXL04_032713|OH1004|cDNA

ATGTCGGGTAATAGTTATAGCTATTTCGATATGGTGAAACCCTTTTGGAGACCGTGTGTCGGGGGTGCACAAAGTGGAAGAACAAATGGGTTGTTGTGGTACAAAGATTTGGGGGCTCATGTAAACGGAGAGTTTTCAATGGCGGTGGTTCAAGCCAATAGTTTGTTGGAGGATCAAAGCCAGATCGAATCAGGACCGTTGGATTCGGTGAATTCAGGGCCTTTTGGGACGTTTGTTGGTGTCTATGATGGACATGGCGG...

CDS

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2379 bp · LXL04_032713|LXL04_032713|OH1004|CDS

ATGTCGGGTAATAGTTATAGCTATTTCGATATGGTGAAACCCTTTTGGAGACCGTGTGTCGGGGGTGCACAAAGTGGAAGAACAAATGGGTTGTTGTGGTACAAAGATTTGGGGGCTCATGTAAACGGAGAGTTTTCAATGGCGGTGGTTCAAGCCAATAGTTTGTTGGAGGATCAAAGCCAGATCGAATCAGGACCGTTGGATTCGGTGAATTCAGGGCCTTTTGGGACGTTTGTTGGTGTCTATGATGGACATGGCGG...

Protein

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792 aa · LXL04_032713|LXL04_032713|OH1004|PROTEIN

MSGNSYSYFDMVKPFWRPCVGGAQSGRTNGLLWYKDLGAHVNGEFSMAVVQANSLLEDQSQIESGPLDSVNSGPFGTFVGVYDGHGGPESSRFVNENLFSNLKKFVSEDEEMSADAIKKAFLATEDQFISIVRDQWRTCPQFACVGTCCLVGVICDGVIYIANAGDSRVVLGRANNDGDGVSAIQLSEEHNVNRGCVRDELRSLHPDDPKIVVMKHNVWRVKGLIQVSRSIGDAYLKNPEFNRAPLLPKFRVSQSFSKQI...

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_032713`
TK1151 ID	TkA08G200340
OH-1004 ID	LXL04_032713
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	93.600
Protein coverage (%)	TK1151 100.000 / OH-1004 98.737 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_032713

Location Chr07:28236412-28243524 (-)

Description Similar to PP2C38: Probable protein phosphatase 2C 38

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g12620`	May dephosphorylate and repress plasma membrane H(+)-ATPases (PM H(+)-ATPases, e.g. AHA1 and AHA2), thus influencing negatively plant growth and fitness (By similarity).	The Arabidopsis Protein Phosphatase PP2C38 Negatively Regulates the Central Immune Kinase BIK1.2016 · DOI: 10.1371/journal.ppat.1005811
`At3g51370`	May dephosphorylate and repress plasma membrane H(+)-ATPases (PM H(+)-ATPases, e.g. AHA1 and AHA2), thus influencing negatively plant growth and fitness.	No verified direct reference in this release
`At3g55050`	May dephosphorylate and repress plasma membrane H(+)-ATPases (PM H(+)-ATPases, e.g. AHA1 and AHA2), thus influencing negatively plant growth and fitness.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os06g0717800`	Probable protein phosphatase 2C 60.	No verified direct reference in this release
`Os03g0137200`	Probable protein phosphatase 2C 28.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_032713 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:1900425 negative regulation of defense response to bacterium Biological Process

GO:1902531 regulation of intracellular signal transduction Biological Process

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0016020 membrane Cellular Component

GO:0004722 protein serine/threonine phosphatase activity Molecular Function

GO:0046872 metal ion binding Molecular Function

KEGG gene cross-reference

ath:AT3G12620

ath:AT3G51370

ath:AT3G55050

dosa:Os03g0137200

dosa:Os06g0717800

osa:4331548

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.

Plastid0.895

Rank 1 · LXL04_032713 · OH-1004

Golgi apparatus0.052

Rank 2 · LXL04_032713 · OH-1004

Cytoplasm0.040

Rank 3 · LXL04_032713 · OH-1004

Endoplasmic reticulum0.040

Rank 4 · LXL04_032713 · OH-1004

Cell membrane0.038

Rank 5 · LXL04_032713 · 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.

PF00481.27PP2C77-321 aa

PF03741.24TerC557-790 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_032713	`PF00481.27`	PP2C	77	321	1.7e-37	130.2
LXL04_032713	`PF03741.24`	TerC	557	790	2.6e-57	194.5

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
`Q9LHJ9`	Arabidopsis thaliana	Probable protein phosphatase 2C 38	64.644%	Swiss-Prot	weak database homology
`Q9SD12`	Arabidopsis thaliana	Probable protein phosphatase 2C 46	65.625%	Swiss-Prot	weak database homology
`Q94CL8`	Arabidopsis thaliana	Probable protein phosphatase 2C 48	62.400%	Swiss-Prot	weak database homology
`Q5Z8P0`	Oryza sativa subsp. japonica	Probable protein phosphatase 2C 60	64.420%	Swiss-Prot	weak database homology
`Q10S32`	Oryza sativa subsp. japonica	Probable protein phosphatase 2C 28	63.456%	Swiss-Prot	weak database homology

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