LXL04_016024 | RubberDandelionOmics

Gene overview

LXL04_016024

Reference: OH-1004 Chr: Chr03 Coordinates: 104163147-104174255 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2912 bp · LXL04_016024|LXL04_016024|OH1004|cDNA

ATGATCAAAGTAGGAAAACTCATGAACAAAGAGGCCAAGCCGCAGTTCTTATGCAAGAAGCTGGAAGAAGTTTCCACCATTAAAACATGCTGCCATTGTTTGGCAAAACCAAGGCCATGATATTGACGTACTCTTCTTCTTTCATCACTCATTTACTCGCACTCCCTCCTGCTTCCACTTCTACTTCTACTCGAGCCGTAACTTCTTCCCTACTTCATCGATCCCTTCAGGGTTCTTTTGGTCCGATTTTGAGGTACAAG...

CDS

Download CDS FASTA

2826 bp · LXL04_016024|LXL04_016024|OH1004|CDS

ATGCTGCCATTGTTTGGCAAAACCAAGGCCATGATATTGACGTACTCTTCTTCTTTCATCACTCATTTACTCGCACTCCCTCCTGCTTCCACTTCTACTTCTACTCGAGCCGTAACTTCTTCCCTACTTCATCGATCCCTTCAGGGTTCTTTTGGTCCGATTTTGAGGTACAAGTTGCGGAGTTATTGCTCTGCGCCAGTGAACAGAGGAGAATTTATGGCTAGCAACATCAAAGTGGTTCAAAATCCCGACTCAATTTC...

Protein

Download Protein FASTA

941 aa · LXL04_016024|LXL04_016024|OH1004|PROTEIN

MLPLFGKTKAMILTYSSSFITHLLALPPASTSTSTRAVTSSLLHRSLQGSFGPILRYKLRSYCSAPVNRGEFMASNIKVVQNPDSISYLNQREAAEIDEILMGPLGFSVDQLMELAGLSVATAIAEVYNVKDYNRVLAICGPGNNGGDGLVVARHLYHFGYKPSVCYPKRTAKPLYTGLVTQLESLGIPFLSVDDLPMNLSEDFNILVDAMFGFSFYGTPRPPFDDLIERLVNLQSYNEINKKPSVIASIDIPSGWHVEQ...

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_016024`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_016024

Location Chr03:104163147-104174255 (-)

Description Similar to PPOX1: Pyridoxine/pyridoxamine 5'-phosphate oxidase 1, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g49970`	Catalyzes the oxidation of either pyridoxine 5'-phosphate (PNP) or pyridoxamine 5'-phosphate (PMP) into pyridoxal 5'-phosphate (PLP).	Identification of a pyridoxine (pyridoxamine) 5'-phosphate oxidase from Arabidopsis thaliana.2007 · DOI: 10.1016/j.febslet.2006.12.028 Vitamer levels, stress response, enzyme activity, and gene regulation of Arabidopsis lines mutant in the pyridoxine/pyridoxamine 5'-phosphate oxidase (PDX3) and the pyridoxal kinase (SOS4) genes involved in the vitamin B6 salvage pathway.2007 · DOI: 10.1104/pp.107.105189

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_016024 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006739 NADP+ metabolic process Biological Process

GO:0006869 lipid transport Biological Process

GO:0008615 pyridoxine biosynthetic process Biological Process

GO:0010874 regulation of cholesterol efflux Biological Process

GO:0019674 NAD+ metabolic process Biological Process

GO:0031580 membrane raft distribution Biological Process

GO:0046496 nicotinamide nucleotide metabolic process Biological Process

GO:0110051 metabolite repair Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005615 extracellular space Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005829 cytosol Cellular Component

KEGG gene cross-reference

ath:AT5G49970

isc:8039603

mmu:246703

rno:295229

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Plastid0.380

Rank 1 · LXL04_016024 · OH-1004

Cytoplasm0.255

Rank 2 · LXL04_016024 · OH-1004

Nucleus0.209

Rank 3 · LXL04_016024 · OH-1004

Mitochondrion0.153

Rank 4 · LXL04_016024 · OH-1004

Cell membrane0.063

Rank 5 · LXL04_016024 · 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.

PF03853.22YjeF_N110-282 aa

PF01243.28PNPOx_N357-464 aa

PF10590.15PNP_phzG_C480-504 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_016024	`PF03853.22`	YjeF_N	110	282	5.8e-36	124.7
LXL04_016024	`PF01243.28`	PNPOx_N	357	464	1.3e-19	71.5
LXL04_016024	`PF10590.15`	PNP_phzG_C	480	504	1.5e-12	47.9

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
`Q9LTX3`	Arabidopsis thaliana	Pyridoxine/pyridoxamine 5'-phosphate oxidase 1, chloroplastic	66.237%	Swiss-Prot	weak database homology

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