LXL04_027919 | RubberDandelionOmics

Gene overview

LXL04_027919

Reference: OH-1004 Chr: Chr06 Coordinates: 26605959-26607509 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

870 bp · LXL04_027919|LXL04_027919|OH1004|cDNA

ATGAAGATCGAGGATTTGGATGATTCGTCAGATGTGAAAAATAATCAGCAAATTGTCGATTATAATTATAGTCGGCAGATTGTTACGGTGGATGCGAAGCGAGCGTTGGTTGGAGCTGGGGCTCGCATCCTGTTTTACCCTACACTTCTCTATAATGTTTGTCGTAACAAGATTCAAGCTGAGTTCAGATGGTGGGACCAAATCGATCAGTTTCTTCTTCTGGGTGCTGTTCCATTTCCAAAAGATGTTCCTCGATTAAA...

CDS

Download CDS FASTA

870 bp · LXL04_027919|LXL04_027919|OH1004|CDS

ATGAAGATCGAGGATTTGGATGATTCGTCAGATGTGAAAAATAATCAGCAAATTGTCGATTATAATTATAGTCGGCAGATTGTTACGGTGGATGCGAAGCGAGCGTTGGTTGGAGCTGGGGCTCGCATCCTGTTTTACCCTACACTTCTCTATAATGTTTGTCGTAACAAGATTCAAGCTGAGTTCAGATGGTGGGACCAAATCGATCAGTTTCTTCTTCTGGGTGCTGTTCCATTTCCAAAAGATGTTCCTCGATTAAA...

Protein

Download Protein FASTA

289 aa · LXL04_027919|LXL04_027919|OH1004|PROTEIN

MKIEDLDDSSDVKNNQQIVDYNYSRQIVTVDAKRALVGAGARILFYPTLLYNVCRNKIQAEFRWWDQIDQFLLLGAVPFPKDVPRLKQLGVGGVITLNEPYETLVPTSLYHAHGIDHLVIPTRDYLFAPSFLDIDRAVNFIHKNATNCRTTYVHCKAGRGRSTTIVLCYLVEYKHMTPVSALEYVRSRRPRVLLAPSQWKAVQEYKQWRLASSTCSTATSSPSGDAVLITKADLEGYKIPSSQGKELAVVPKVARTRPMI...

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_027919`
TK1151 ID	TkA07G104910
OH-1004 ID	LXL04_027919
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_027919

Location Chr06:26605959-26607509 (-)

Description Similar to PTPMT2: Phosphatidylglycerophosphate phosphatase PTPMT2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g56610`	Exhibits phosphatidylglycerophosphate phosphatase activity.	Phosphatidylglycerophosphate phosphatase is required for root growth in Arabidopsis.2018 · DOI: 10.1016/j.bbalip.2018.02.007
`At2g35680`	Exhibits phosphatidylglycerophosphate phosphatase activity.	Phosphatidylglycerophosphate phosphatase is required for root growth in Arabidopsis.2018 · DOI: 10.1016/j.bbalip.2018.02.007

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_027919 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006655 phosphatidylglycerol biosynthetic process Biological Process

GO:0032049 cardiolipin biosynthetic process Biological Process

GO:0046488 phosphatidylinositol metabolic process Biological Process

GO:0048364 root development Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005743 mitochondrial inner membrane Cellular Component

GO:0004722 protein serine/threonine phosphatase activity Molecular Function

GO:0004725 protein tyrosine phosphatase activity Molecular Function

GO:0008962 phosphatidylglycerophosphatase activity Molecular Function

GO:0102091 phosphatidylinositol-5-phosphate phosphatase activity Molecular Function

KEGG gene cross-reference

ath:AT2G35680

ath:AT5G56610

dme:Dmel_CG10371

mmu:66461

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.

Mitochondrion0.409

Rank 1 · LXL04_027919 · OH-1004

Cytoplasm0.239

Rank 2 · LXL04_027919 · OH-1004

Nucleus0.140

Rank 3 · LXL04_027919 · OH-1004

Endoplasmic reticulum0.104

Rank 4 · LXL04_027919 · OH-1004

Plastid0.086

Rank 5 · LXL04_027919 · 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.

PF22784.2PTP-SAK80-181 aa

PF22785.2Tc-R-P84-172 aa

PF00782.26DSPc89-207 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027919	`PF22784.2`	PTP-SAK	80	181	8.2e-13	49.4
LXL04_027919	`PF22785.2`	Tc-R-P	84	172	3e-12	47.7
LXL04_027919	`PF00782.26`	DSPc	89	207	7.8e-19	68.5

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q6NKR2`	Arabidopsis thaliana	Phosphatidylglycerophosphate phosphatase PTPMT2	70.918%	Swiss-Prot	moderate database homology
`Q9ZQP1`	Arabidopsis thaliana	Phosphatidylglycerophosphate phosphatase PTPMT1	53.737%	Swiss-Prot	strong database homology

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