LXL04_025590 | RubberDandelionOmics

Gene overview

LXL04_025590

Reference: OH-1004 Chr: Chr05 Coordinates: 113897273-113899312 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1497 bp · LXL04_025590|LXL04_025590|OH1004|cDNA

ATGGATTCATCAGAGAGGAATAATTCTCAATTGAAACAAGCACCCTGTTATTCAAACATCAAAACAAAGCTTTCGAAATCTCCATCTGTGATAGTAGTAGGTGGTGGCTTTGCTGGAATAGCTGCCGCCCGTGCCCTCCATGATGCTTCAATCCGGGTTATATTACTAGAGTCCCGTGACCGAATTGGTGGCCGAGTCCGTACAGATTACTCCTTTGGGTTTCCAGTGGATTTAGGGGCTTCGTGGTTACATGGAGTTTG...

CDS

Download CDS FASTA

1497 bp · LXL04_025590|LXL04_025590|OH1004|CDS

ATGGATTCATCAGAGAGGAATAATTCTCAATTGAAACAAGCACCCTGTTATTCAAACATCAAAACAAAGCTTTCGAAATCTCCATCTGTGATAGTAGTAGGTGGTGGCTTTGCTGGAATAGCTGCCGCCCGTGCCCTCCATGATGCTTCAATCCGGGTTATATTACTAGAGTCCCGTGACCGAATTGGTGGCCGAGTCCGTACAGATTACTCCTTTGGGTTTCCAGTGGATTTAGGGGCTTCGTGGTTACATGGAGTTTG...

Protein

Download Protein FASTA

498 aa · LXL04_025590|LXL04_025590|OH1004|PROTEIN

MDSSERNNSQLKQAPCYSNIKTKLSKSPSVIVVGGGFAGIAAARALHDASIRVILLESRDRIGGRVRTDYSFGFPVDLGASWLHGVCKENPLAPLIGRLGLPLYRTSGDNSVLYDHDLERQLCTIRRGREPSSPRTRHTSRRNIRKHITRGMSSSSFTNKIREEFTEDLSIHRAISLVFERNPNLTLPGLSHKVLQWYLCRMEGWFAADADTISLKCWDKEELLPGGHGLMVRGYQPVINTLAKGLDIRLSHPVKKINRR...

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_025590`
TK1151 ID	TkA06G049950
OH-1004 ID	LXL04_025590
Relationship / confidence	Multi Candidate From Tk1151 / Complex relationship
Protein identity (%)	93.000
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_025590

Location Chr05:113897273-113899312 (+)

Description Similar to PAO2: Polyamine oxidase 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g43020`	Flavoenzyme involved in polyamine back-conversion.	Characterization of five polyamine oxidase isoforms in Arabidopsis thaliana.2010 · DOI: 10.1007/s00299-010-0881-1 Functional diversity inside the Arabidopsis polyamine oxidase gene family.2011 · DOI: 10.1093/jxb/erq341 POLYAMINE OXIDASE2 of Arabidopsis contributes to ABA mediated plant developmental processes.2015 · DOI: 10.1016/j.plaphy.2015.08.003
`At3g59050`	Flavoenzyme involved in polyamine back-conversion.	Bridging the gap between plant and mammalian polyamine catabolism: a novel peroxisomal polyamine oxidase responsible for a full back-conversion pathway in Arabidopsis.2008 · DOI: 10.1104/pp.108.123802 Characterization of five polyamine oxidase isoforms in Arabidopsis thaliana.2010 · DOI: 10.1007/s00299-010-0881-1 Spermidine oxidase-derived H₂O₂ regulates pollen plasma membrane hyperpolarization-activated Ca(2+) -permeable channels and pollen tube growth.2010 · DOI: 10.1111/j.1365-313x.2010.04301.x Functional diversity inside the Arabidopsis polyamine oxidase gene family.2011 · DOI: 10.1093/jxb/erq341
`At1g65840`	Flavoenzyme involved in polyamine back-conversion.	A putative peroxisomal polyamine oxidase, AtPAO4, is involved in polyamine catabolism in Arabidopsis thaliana.2008 · DOI: 10.1093/pcp/pcn114 Characterization of five polyamine oxidase isoforms in Arabidopsis thaliana.2010 · DOI: 10.1007/s00299-010-0881-1 Functional diversity inside the Arabidopsis polyamine oxidase gene family.2011 · DOI: 10.1093/jxb/erq341 Global Metabolic Profiling of Arabidopsis Polyamine Oxidase 4 (AtPAO4) Loss-of-Function Mutants Exhibiting Delayed Dark-Induced Senescence.2016 · DOI: 10.3389/fpls.2016.00173

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0623300`	Flavoenzyme involved in polyamine back-conversion.	Constitutively and highly expressed Oryza sativa polyamine oxidases localize in peroxisomes and catalyze polyamine back conversion.2012 · DOI: 10.1007/s00726-011-1002-3
`Os04g0671200`	Flavoenzyme involved in polyamine back-conversion.	Constitutively and highly expressed Oryza sativa polyamine oxidases localize in peroxisomes and catalyze polyamine back conversion.2012 · DOI: 10.1007/s00726-011-1002-3

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_025590 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006598 polyamine catabolic process Biological Process

GO:0046203 spermidine catabolic process Biological Process

GO:0046208 spermine catabolic process Biological Process

GO:1903602 thermospermine catabolic process Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0005777 peroxisome Cellular Component

GO:0046592 polyamine oxidase activity Molecular Function

GO:0050660 flavin adenine dinucleotide binding Molecular Function

GO:0052900 spermine oxidase (propane-1,3-diamine-forming) activity Molecular Function

GO:0052901 spermine oxidase activity Molecular Function

GO:0052903 N(1)-acetylpolyamine oxidase (3-acetamidopropanal-forming) activity Molecular Function

GO:1990534 thermospermine oxidase activity Molecular Function

KEGG gene cross-reference

ath:AT1G65840

ath:AT2G43020

ath:AT3G59050

dosa:Os04g0623300

dosa:Os04g0671200

osa:4337046

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.

Peroxisome0.310

Rank 1 · LXL04_025590 · OH-1004

Cytoplasm0.271

Rank 2 · LXL04_025590 · OH-1004

Mitochondrion0.167

Rank 3 · LXL04_025590 · OH-1004

Plastid0.116

Rank 4 · LXL04_025590 · OH-1004

Nucleus0.114

Rank 5 · LXL04_025590 · 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.

PF07992.21Pyr_redox_229-62 aa

PF00890.31FAD_binding_230-73 aa

PF01266.31DAO30-64 aa

PF12831.14FAD_oxidored30-65 aa

PF13450.13NAD_binding_832-90 aa

PF01593.31Amino_oxidase37-465 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025590	`PF07992.21`	Pyr_redox_2	29	62	3.3e-09	37.3
LXL04_025590	`PF00890.31`	FAD_binding_2	30	73	2.7e-08	34.2
LXL04_025590	`PF01266.31`	DAO	30	64	2.7e-07	31.2
LXL04_025590	`PF12831.14`	FAD_oxidored	30	65	2.3e-06	27.9
LXL04_025590	`PF13450.13`	NAD_binding_8	32	90	3.8e-14	53.4
LXL04_025590	`PF01593.31`	Amino_oxidase	37	465	1e-95	322.4

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
`Q9SKX5`	Arabidopsis thaliana	Polyamine oxidase 2	73.494%	Swiss-Prot	strong database homology
`Q9LYT1`	Arabidopsis thaliana	Polyamine oxidase 3	70.942%	Swiss-Prot	strong database homology
`Q8H191`	Arabidopsis thaliana	Probable polyamine oxidase 4	58.577%	Swiss-Prot	strong database homology
`Q7X809`	Oryza sativa subsp. japonica	Polyamine oxidase 3	69.485%	Swiss-Prot	strong database homology
`Q7XR46`	Oryza sativa subsp. japonica	Polyamine oxidase 4	57.764%	Swiss-Prot	strong database homology

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