LXL04_001443 | RubberDandelionOmics

Gene overview

LXL04_001443

Reference: OH-1004 Chr: Chr01 Coordinates: 26961824-26966384 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2085 bp · LXL04_001443|LXL04_001443|OH1004|cDNA

ATGGAAGAATCGCCGAGCGCCACCAAAGCCGCCAAAATCTGCTCAATTCAATGTGATCCAATACAAAACCCCACCGGCGGTTGCATAGCCCTCTGCTCTTCCATCTGTGGCTACTTCTGTAACATCAGCGATTCATCTCCGCCGCTACAATCACCAACGCCGTTGCCCACCGACGGTTTTATCCTCAGTACACCAACCCCAAAACACCACCACTCACCACTTAGTCTTCCCCTCAAGATCTCCCTTGTAATCCTTGTTGT...

CDS

Download CDS FASTA

2085 bp · LXL04_001443|LXL04_001443|OH1004|CDS

ATGGAAGAATCGCCGAGCGCCACCAAAGCCGCCAAAATCTGCTCAATTCAATGTGATCCAATACAAAACCCCACCGGCGGTTGCATAGCCCTCTGCTCTTCCATCTGTGGCTACTTCTGTAACATCAGCGATTCATCTCCGCCGCTACAATCACCAACGCCGTTGCCCACCGACGGTTTTATCCTCAGTACACCAACCCCAAAACACCACCACTCACCACTTAGTCTTCCCCTCAAGATCTCCCTTGTAATCCTTGTTGT...

Protein

Download Protein FASTA

694 aa · LXL04_001443|LXL04_001443|OH1004|PROTEIN

MEESPSATKAAKICSIQCDPIQNPTGGCIALCSSICGYFCNISDSSPPLQSPTPLPTDGFILSTPTPKHHHSPLSLPLKISLVILVVTFSLFLLYTLYKFYTVWYRSRRRRSPPPSPETQETHDEFLDHDVLDHPIWYIRTIGLQPSVISAITVVKYSKTDGLIEETNCSVCLSEFEEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAGIVKNTTSSSSDQNLDDSGRTEETRLAIPIPEEVNREERQSELDRQSS...

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_001443`
TK1151 ID	TkA01G534850
OH-1004 ID	LXL04_001443
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	93.700
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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_001443

Location Chr01:26961824-26966384 (+)

Description Similar to 2ODD19: 2-oxoglutarate-dependent dioxygenase 19

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g10500`	Converts salicylic acid (SA) to both 2,3-dihydroxybenzoic acid (2,3-DHBA) and 2,5-DHBA in vitro but only 2,3-DHBA in vivo.	DOWNY MILDEW RESISTANT 6 and DMR6-LIKE OXYGENASE 1 are partially redundant but distinct suppressors of immunity in Arabidopsis.2015 · DOI: 10.1111/tpj.12719
`At4g10490`	Converts salicylic acid (SA) to 2,3-dihydroxybenzoic acid (2,3-DHBA) (By similarity).	DOWNY MILDEW RESISTANT 6 and DMR6-LIKE OXYGENASE 1 are partially redundant but distinct suppressors of immunity in Arabidopsis.2015 · DOI: 10.1111/tpj.12719

Rice

Reference gene ID	Possible function	Papers / DOI
`Os08g0480200`	Involved in melatonin degradation.	No verified direct reference in this release
`Os08g0560000`	Involved in the regulation of shoot development and salicylic acid (SA) homeostasis.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001443 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0002229 defense response to oomycetes Biological Process

GO:0002239 response to oomycetes Biological Process

GO:0009617 response to bacterium Biological Process

GO:0009620 response to fungus Biological Process

GO:0009751 response to salicylic acid Biological Process

GO:0010150 leaf senescence Biological Process

GO:0046244 salicylic acid catabolic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0016706 2-oxoglutarate-dependent dioxygenase activity Molecular Function

GO:0031418 L-ascorbic acid binding Molecular Function

KEGG gene cross-reference

ath:AT4G10490

ath:AT4G10500

dosa:Os08g0480200

dosa:Os08g0560000

osa:4345848

osa:4346321

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.

Cytoplasm0.555

Rank 1 · LXL04_001443 · OH-1004

Nucleus0.419

Rank 2 · LXL04_001443 · OH-1004

Cell membrane0.128

Rank 3 · LXL04_001443 · OH-1004

Endoplasmic reticulum0.064

Rank 4 · LXL04_001443 · OH-1004

Lysosome / Vacuole0.047

Rank 5 · LXL04_001443 · 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.

PF13639.13zf-RING_2168-211 aa

PF12678.14zf-rbx1168-211 aa

PF17123.12zf-RING_11168-197 aa

PF13923.13zf-C3HC4_2168-210 aa

PF00097.32zf-C3HC4169-210 aa

PF12861.14zf-ANAPC11176-212 aa

PF14226.13DIOX_N369-475 aa

PF03171.272OG-FeII_Oxy525-619 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_001443	`PF13639.13`	zf-RING_2	168	211	8e-14	52.3
LXL04_001443	`PF12678.14`	zf-rbx1	168	211	2e-10	41.5
LXL04_001443	`PF17123.12`	zf-RING_11	168	197	2.2e-10	40.8
LXL04_001443	`PF13923.13`	zf-C3HC4_2	168	210	4.7e-08	33.4
LXL04_001443	`PF00097.32`	zf-C3HC4	169	210	1.3e-07	32.0
LXL04_001443	`PF12861.14`	zf-ANAPC11	176	212	9.4e-06	26.3
LXL04_001443	`PF14226.13`	DIOX_N	369	475	1.9e-27	96.9
LXL04_001443	`PF03171.27`	2OG-FeII_Oxy	525	619	1.9e-27	96.3

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
`Q9ZSA8`	Arabidopsis thaliana	Protein DMR6-LIKE OXYGENASE 1	39.881%	Swiss-Prot	weak database homology
`Q9ZSA7`	Arabidopsis thaliana	Protein DMR6-LIKE OXYGENASE 2	38.235%	Swiss-Prot	weak database homology
`Q6Z244`	Oryza sativa subsp. japonica	2-oxoglutarate-dependent dioxygenase 19	44.954%	Swiss-Prot	weak database homology
`Q6YYX9`	Oryza sativa subsp. japonica	Probable 2-oxoglutarate-dependent dioxygenase SLC1	42.086%	Swiss-Prot	weak database homology

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