LXL04_003450 | RubberDandelionOmics

Gene overview

LXL04_003450

Reference: OH-1004 Chr: Chr01 Coordinates: 79539562-79543928 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1041 bp · LXL04_003450|LXL04_003450|OH1004|cDNA

ATGCCAAGAATGACGACGTCGAGCGCTTCTCAAGTTACAGATGAAGTTGTCCAAACAAGCGAAAAGGAGAGAGGTGTTACCTTACACTGCTCAATGCTCTCAAAAATGAACTACTCAGTATGGGCTATAAaaatgctggtgaatttacaAGAACAAGGAGTGTGGAACGCAGTTCAGAATTCAGAAGTAGACGAACGAAAGGATCGGATAGCTCTTGCAGCAATTTATCAAGCAATTCCAGAGGACGTGCTTTTAATGTT...

CDS

Download CDS FASTA

1032 bp · LXL04_003450|LXL04_003450|OH1004|CDS

ATGCCAAGAATGACGACGTCGAGCGCTTCTCAAGTTACAGATGAAGTTGTCCAAACAAGCGAAAAGGAGAGAGGTGTTACCTTACACTGCTCAATGCTCTCAAAAATGAACTACTCAGTATGGGCTATAAAAATGCTGGTGAATTTACAAGAACAAGGAGTGTGGAACGCAGTTCAGAATTCAGAAGTAGACGAACGAAAGGATCGGATAGCTCTTGCAGCAATTTATCAAGCAATTCCAGAGGACGTGCTTTTAATGTT...

Protein

Download Protein FASTA

343 aa · LXL04_003450|LXL04_003450|OH1004|PROTEIN

MPRMTTSSASQVTDEVVQTSEKERGVTLHCSMLSKMNYSVWAIKMLVNLQEQGVWNAVQNSEVDERKDRIALAAIYQAIPEDVLLMLVEKDTAKEAWETLGLSMGWVWSVLGAEIAEIESRNRNSDAENSIKGAGYDIECSEFMKGLQCSCVYALVFNCGPLYVILGPFPRSRTRKSKTFRSQYIETKELKLSVNTWNLGGELPPDDLNIKDLLNTTTLIYILRKHIKNVHMSTVGVGAMGFIGNKGSISASMCIYETNY...

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_003450`
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_003450

Location Chr01:79539562-79543928 (-)

Description Similar to IP5P3: Type IV inositol polyphosphate 5-phosphatase 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g71710`	Has phosphatase activity toward PtdIns(4,5)P2 and PtdIns(3,4,5)P3.	No verified direct reference in this release
`At1g34120`	Has phosphatase activity toward Ins(1,4,5)P3 and Ins(1,3,4,5)P4, but not toward Ins(1,4)P2, Ins(1)P.	No verified direct reference in this release
`At1g05470`	May have phosphatase activity toward PtdIns(4,5)P₂ and PtdIns(3,4,5)P₃.	Genetic regulation of vascular tissue patterning in Arabidopsis.1999 · DOI: 10.1105/tpc.11.11.2123 Cotyledon vascular pattern2-mediated inositol (1,4,5) triphosphate signal transduction is essential for closed venation patterns of Arabidopsis foliar organs.2004 · DOI: 10.1105/tpc.021030 CVP2- and CVL1-mediated phosphoinositide signaling as a regulator of the ARF GAP SFC/VAN3 in establishment of foliar vein patterns.2009 · DOI: 10.1111/j.1365-313x.2009.03920.x Primary root protophloem differentiation requires balanced phosphatidylinositol-4,5-biphosphate levels and systemically affects root branching.2015 · DOI: 10.1242/dev.118364
`At2g37440`	Type I inositol polyphosphate 5-phosphatase 8.	No verified direct reference in this release
`At5g65090`	May be involved in the regulation of root hairs development.	Genetic interactions during root hair morphogenesis in Arabidopsis.2000 · DOI: 10.1105/tpc.12.10.1961 Analysis of the root-hair morphogenesis transcriptome reveals the molecular identity of six genes with roles in root-hair development in Arabidopsis.2006 · DOI: 10.1111/j.1365-313x.2005.02609.x

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_003450 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009738 abscisic acid-activated signaling pathway Biological Process

GO:0009845 seed germination Biological Process

GO:0032957 inositol trisphosphate metabolic process Biological Process

GO:0043647 inositol phosphate metabolic process Biological Process

GO:0046856 phosphatidylinositol dephosphorylation Biological Process

GO:0090351 seedling development Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0004439 phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity Molecular Function

GO:0004445 inositol-polyphosphate 5-phosphatase activity Molecular Function

GO:0034485 phosphatidylinositol-3,4,5-trisphosphate 5-phosphatase activity Molecular Function

GO:0046030 inositol trisphosphate phosphatase activity Molecular Function

KEGG gene cross-reference

ath:AT1G34120

ath:AT1G71710

ath:AT2G37440

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.

Cytoplasm0.261

Rank 1 · LXL04_003450 · OH-1004

Plastid0.225

Rank 2 · LXL04_003450 · OH-1004

Nucleus0.196

Rank 3 · LXL04_003450 · OH-1004

Endoplasmic reticulum0.130

Rank 4 · LXL04_003450 · OH-1004

Cell membrane0.125

Rank 5 · LXL04_003450 · 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.

PF22669.3Exo_endo_phos2209-343 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_003450	`PF22669.3`	Exo_endo_phos2	209	343	6.1e-27	95.6

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
`Q8H0Z6`	Arabidopsis thaliana	Type IV inositol polyphosphate 5-phosphatase 3	70.248%	Swiss-Prot	weak database homology
`Q84MA2`	Arabidopsis thaliana	Type I inositol polyphosphate 5-phosphatase 1	60.976%	Swiss-Prot	weak database homology
`Q9LR47`	Arabidopsis thaliana	Type IV inositol polyphosphate 5-phosphatase 6	50.806%	Swiss-Prot	weak database homology
`Q0WT19`	Arabidopsis thaliana	Type I inositol polyphosphate 5-phosphatase 8	52.893%	Swiss-Prot	weak database homology
`Q66GQ6`	Arabidopsis thaliana	Type I inositol polyphosphate 5-phosphatase 5	49.587%	Swiss-Prot	weak database homology

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