LXL04_022915 | RubberDandelionOmics

Gene overview

LXL04_022915

Reference: OH-1004 Chr: Chr05 Coordinates: 13534660-13536466 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1122 bp · LXL04_022915|LXL04_022915|OH1004|cDNA

ATGGTGCAAATCAACAATCCTATCAATGAAGACAAAACTATGGATTCTTCTCTCTTTTTCAACCAAGAAGACCATGGTAACATTCCTGAGCAATTCATTTGGTCAAAAGATCAAGATGATTCTCATACTACTATTGAAGTGCTAGATGCACCTATAGTAGACTTGCAAGATTTCTTTAAACATGATAAGAAGGCCACATTACATGCTGCCAACCTTGTTAAGAAATCATGCCTAAGCCATGGGTTTTTTCAAGTTGTGAA...

CDS

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1122 bp · LXL04_022915|LXL04_022915|OH1004|CDS

ATGGTGCAAATCAACAATCCTATCAATGAAGACAAAACTATGGATTCTTCTCTCTTTTTCAACCAAGAAGACCATGGTAACATTCCTGAGCAATTCATTTGGTCAAAAGATCAAGATGATTCTCATACTACTATTGAAGTGCTAGATGCACCTATAGTAGACTTGCAAGATTTCTTTAAACATGATAAGAAGGCCACATTACATGCTGCCAACCTTGTTAAGAAATCATGCCTAAGCCATGGGTTTTTTCAAGTTGTGAA...

Protein

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373 aa · LXL04_022915|LXL04_022915|OH1004|PROTEIN

MVQINNPINEDKTMDSSLFFNQEDHGNIPEQFIWSKDQDDSHTTIEVLDAPIVDLQDFFKHDKKATLHAANLVKKSCLSHGFFQVVNHGIDPSLVAMADEYGRAFFKLPITEKMKYKKKEGSVVGFASAHANRFSKKLPWKEMLSFEYHENGPNEAAVDFFNSVSSRQLKETGLIYQKYCKSMKKLALKIFELLEISLDVDGHKYYKELFEDCISIMRCNYYPRCNQPNLTNGVGPHCDPTTITILYQDEVGGLEVFFDN...

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_022915`
TK1151 ID	TkA06G428200
OH-1004 ID	LXL04_022915
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.400
Protein coverage (%)	TK1151 100.000 / OH-1004 96.515 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_022915

Location Chr05:13534660-13536466 (-)

Description Similar to GA20OX3: Gibberellin 20 oxidase 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g07200`	May catalyze oxidation reactions in gibberellin biosynthesis.	Isolation and expression of three gibberellin 20-oxidase cDNA clones from Arabidopsis.1995 · DOI: 10.1104/pp.108.3.1049
`At4g25420`	Key oxidase enzyme in the biosynthesis of gibberellin that catalyzes the conversion of GA12 to GA9, via a three-step oxidation at C-20 of the GA skeleton.	The gibberellin biosynthetic genes AtGA20ox1 and AtGA20ox2 act, partially redundantly, to promote growth and development throughout the Arabidopsis life cycle.2008 · DOI: 10.1111/j.1365-313x.2007.03356.x Isolation and expression of three gibberellin 20-oxidase cDNA clones from Arabidopsis.1995 · DOI: 10.1104/pp.108.3.1049
`At5g51810`	Key oxidase enzyme in the biosynthesis of gibberellin that catalyzes the conversion of GA12 to GA9, via a three-step oxidation at C-20 of the GA skeleton, and GA25 is also formed as a minor product.	The gibberellin biosynthetic genes AtGA20ox1 and AtGA20ox2 act, partially redundantly, to promote growth and development throughout the Arabidopsis life cycle.2008 · DOI: 10.1111/j.1365-313x.2007.03356.x Isolation and expression of three gibberellin 20-oxidase cDNA clones from Arabidopsis.1995 · DOI: 10.1104/pp.108.3.1049

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0883800`	May catalyze oxidation reactions in gibberellin biosynthesis.	Semidwarf (sd-1), "green revolution" rice, contains a defective gibberellin 20-oxidase gene.2002 · DOI: 10.1073/pnas.132266399

Functional annotation source

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Functional annotation source: OH1004 · LXL04_022915 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009413 response to flooding Biological Process

GO:0009416 response to light stimulus Biological Process

GO:0009639 response to red or far red light Biological Process

GO:0009686 gibberellin biosynthetic process Biological Process

GO:0009739 response to gibberellin Biological Process

GO:0009740 gibberellic acid mediated signaling pathway Biological Process

GO:0048366 leaf development Biological Process

GO:0048575 short-day photoperiodism, flowering Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0045544 gibberellin 20-oxidase activity Molecular Function

GO:0046872 metal ion binding Molecular Function

GO:0051213 dioxygenase activity Molecular Function

KEGG gene cross-reference

ath:AT4G25420

ath:AT5G07200

ath:AT5G51810

dosa:Os01g0883800

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.

Cytoplasm0.786

Rank 1 · LXL04_022915 · OH-1004

Nucleus0.355

Rank 2 · LXL04_022915 · OH-1004

Endoplasmic reticulum0.046

Rank 3 · LXL04_022915 · OH-1004

Mitochondrion0.046

Rank 4 · LXL04_022915 · OH-1004

Peroxisome0.042

Rank 5 · LXL04_022915 · 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.

PF14226.13DIOX_N51-153 aa

PF03171.272OG-FeII_Oxy214-312 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022915	`PF14226.13`	DIOX_N	51	153	6.7e-23	82.3
LXL04_022915	`PF03171.27`	2OG-FeII_Oxy	214	312	6.2e-37	126.7

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
`Q39112`	Arabidopsis thaliana	Gibberellin 20 oxidase 3	47.956%	Swiss-Prot	moderate database homology
`Q39110`	Arabidopsis thaliana	Gibberellin 20 oxidase 1	50.000%	Swiss-Prot	strong database homology
`Q39111`	Arabidopsis thaliana	Gibberellin 20 oxidase 2	46.260%	Swiss-Prot	moderate database homology
`Q0JH50`	Oryza sativa subsp. japonica	Gibberellin 20 oxidase 2	49.405%	Swiss-Prot	moderate database homology

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