LXL04_006225 | RubberDandelionOmics

Gene overview

LXL04_006225

Reference: OH-1004 Chr: Chr02 Coordinates: 4313303-4314050 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

609 bp · LXL04_006225|LXL04_006225|OH1004|cDNA

ATGGGTCTCGCCGATTCAGTTGGATTCAAACCCGATAATCATTCACTCTTCAAAGAACTTGCTCTATTCCAAGATTATCATGGCCTCCCTGCTTTCAAAAATGTAAGCTACCCTCAAATGTTCCGACAGAGACGTAAAACAGTTGCAGCGAAAATTAGAGGTGTTAATGAAGCTCTACTTTTTGAACCCAACCGCTGGTGTAGCACTGAGACTATAGCAACTGGCAAGTACGCATCTCCCTCATCCTCCCTCTCTGCAAT...

CDS

Download CDS FASTA

609 bp · LXL04_006225|LXL04_006225|OH1004|CDS

ATGGGTCTCGCCGATTCAGTTGGATTCAAACCCGATAATCATTCACTCTTCAAAGAACTTGCTCTATTCCAAGATTATCATGGCCTCCCTGCTTTCAAAAATGTAAGCTACCCTCAAATGTTCCGACAGAGACGTAAAACAGTTGCAGCGAAAATTAGAGGTGTTAATGAAGCTCTACTTTTTGAACCCAACCGCTGGTGTAGCACTGAGACTATAGCAACTGGCAAGTACGCATCTCCCTCATCCTCCCTCTCTGCAAT...

Protein

Download Protein FASTA

202 aa · LXL04_006225|LXL04_006225|OH1004|PROTEIN

MGLADSVGFKPDNHSLFKELALFQDYHGLPAFKNVSYPQMFRQRRKTVAAKIRGVNEALLFEPNRWCSTETIATGKYASPSSSLSAIAIHGSIWSGFGGEFQSQNEMGNFQLGSGMVNPNSYIRSNIDGFVNLLEVVKSSIAQPTINWASSSSVYGLNSKSRPSILMNFDEYDFEFKFINYVNMILNSRSGFDSPLNTNFSN

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_006225`
TK1151 ID	TkA03G018290
OH-1004 ID	LXL04_006225
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	84.200
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_006225

Location Chr02:4313303-4314050 (+)

Description Similar to GAE3: UDP-glucuronate 4-epimerase 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g00110`	Involved in the synthesis of the negatively charged monosaccharide that forms the backbone of pectic cell wall components.	No verified direct reference in this release
`At1g02000`	Involved in the synthesis of the negatively charged monosaccharide that forms the backbone of pectic cell wall components.	No verified direct reference in this release
`At4g12250`	Involved in the synthesis of the negatively charged monosaccharide that forms the backbone of pectic cell wall components.	No verified direct reference in this release
`At2g45310`	Involved in the synthesis of the negatively charged monosaccharide that forms the backbone of pectic cell wall components.	No verified direct reference in this release
`At3g23820`	Involved in the synthesis of the negatively charged monosaccharide that forms the backbone of pectic cell wall components.	Identification and characterization of a UDP-D-glucuronate 4-epimerase in Arabidopsis.2004 · DOI: 10.1016/j.febslet.2004.06.005

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_006225 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0033481 galacturonate biosynthetic process Biological Process

GO:0050829 defense response to Gram-negative bacterium Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0000138 Golgi trans cisterna Cellular Component

GO:0005768 endosome Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005797 Golgi medial cisterna Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0016020 membrane Cellular Component

GO:0032580 Golgi cisterna membrane Cellular Component

GO:0016854 racemase and epimerase activity Molecular Function

GO:0050378 UDP-glucuronate 4-epimerase activity Molecular Function

KEGG gene cross-reference

ath:AT1G02000

ath:AT2G45310

ath:AT3G23820

ath:AT4G00110

ath:AT4G12250

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.

Nucleus0.487

Rank 1 · LXL04_006225 · OH-1004

Cytoplasm0.322

Rank 2 · LXL04_006225 · OH-1004

Cell membrane0.100

Rank 3 · LXL04_006225 · OH-1004

Plastid0.071

Rank 4 · LXL04_006225 · OH-1004

Endoplasmic reticulum0.063

Rank 5 · LXL04_006225 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

No result was found for this query.

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
`O81312`	Arabidopsis thaliana	UDP-glucuronate 4-epimerase 3	71.739%	Swiss-Prot	weak database homology
`Q9LPC1`	Arabidopsis thaliana	UDP-glucuronate 4-epimerase 2	73.333%	Swiss-Prot	weak database homology
`Q9STI6`	Arabidopsis thaliana	UDP-glucuronate 4-epimerase 5	75.556%	Swiss-Prot	weak database homology
`O22141`	Arabidopsis thaliana	UDP-glucuronate 4-epimerase 4	69.565%	Swiss-Prot	weak database homology
`Q9LIS3`	Arabidopsis thaliana	UDP-glucuronate 4-epimerase 6	69.565%	Swiss-Prot	weak database homology

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