LXL04_014531 | RubberDandelionOmics

Gene overview

LXL04_014531

Reference: OH-1004 Chr: Chr03 Coordinates: 51775155-51776498 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1344 bp · LXL04_014531|LXL04_014531|OH1004|cDNA

ATGGCGTCGCCGCCGGACACCAGTAAAACAACCAAGCTCGAACGCTATAACAGCTACATAAGGAGAGTCAATAGCACAAAGCTCTTAGCGGCTTCTTCCAAGCTTCTCTTTCGTGTTACCCTTTTGGTTGCTTTggtcttgatctttttctttaCGTTTAATTACCCTCCGCTTGCCGATAATGCTTCTCCCGCCGGCCACCATGTTCATACCACGTCCCACCTTCTGTCCTCCGCGTTTTACGGTAGTGGTGCGTCGTG...

CDS

Download CDS FASTA

1344 bp · LXL04_014531|LXL04_014531|OH1004|CDS

ATGGCGTCGCCGCCGGACACCAGTAAAACAACCAAGCTCGAACGCTATAACAGCTACATAAGGAGAGTCAATAGCACAAAGCTCTTAGCGGCTTCTTCCAAGCTTCTCTTTCGTGTTACCCTTTTGGTTGCTTTGGTCTTGATCTTTTTCTTTACGTTTAATTACCCTCCGCTTGCCGATAATGCTTCTCCCGCCGGCCACCATGTTCATACCACGTCCCACCTTCTGTCCTCCGCGTTTTACGGTAGTGGTGCGTCGTG...

Protein

Download Protein FASTA

447 aa · LXL04_014531|LXL04_014531|OH1004|PROTEIN

MASPPDTSKTTKLERYNSYIRRVNSTKLLAASSKLLFRVTLLVALVLIFFFTFNYPPLADNASPAGHHVHTTSHLLSSAFYGSGASWEKEVRRSSTPRRPNGFSVLVTGAGGFVGTHCSLALKKRGDGVLGLDNFNSYYDPSLKRARQKVLKQHEIFIVEGDLNDGELLAKLFDIVPFTHVLHLAAQAGVRYAMENPQSYVSSNIAGYVNLLEVAKNADPQPAIVWASSSSVYGLNTENPFSESDRTDQPASLYAATKKA...

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_014531`
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_014531

Location Chr03:51775155-51776498 (+)

Description Similar to GAE6: UDP-glucuronate 4-epimerase 6

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`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
`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
`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
`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

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_014531 · 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.

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.

Golgi apparatus0.653

Rank 1 · LXL04_014531 · OH-1004

Endoplasmic reticulum0.169

Rank 2 · LXL04_014531 · OH-1004

Cytoplasm0.081

Rank 3 · LXL04_014531 · OH-1004

Lysosome / Vacuole0.063

Rank 4 · LXL04_014531 · OH-1004

Extracellular0.047

Rank 5 · LXL04_014531 · 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.

PF01370.28Epimerase105-342 aa

PF04321.24RmlD_sub_bind105-288 aa

PF02719.22Polysacc_synt_2105-336 aa

PF16363.12GDP_Man_Dehyd106-425 aa

PF01073.263Beta_HSD106-383 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_014531	`PF01370.28`	Epimerase	105	342	1.1e-49	169.7
LXL04_014531	`PF04321.24`	RmlD_sub_bind	105	288	3.9e-12	46.6
LXL04_014531	`PF02719.22`	Polysacc_synt_2	105	336	1e-09	38.7
LXL04_014531	`PF16363.12`	GDP_Man_Dehyd	106	425	1e-46	160.7
LXL04_014531	`PF01073.26`	3Beta_HSD	106	383	4.1e-13	49.7

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
`Q9LIS3`	Arabidopsis thaliana	UDP-glucuronate 4-epimerase 6	77.093%	Swiss-Prot	strong database homology
`O81312`	Arabidopsis thaliana	UDP-glucuronate 4-epimerase 3	67.619%	Swiss-Prot	strong database homology
`Q9LPC1`	Arabidopsis thaliana	UDP-glucuronate 4-epimerase 2	68.447%	Swiss-Prot	strong database homology
`O22141`	Arabidopsis thaliana	UDP-glucuronate 4-epimerase 4	75.900%	Swiss-Prot	strong database homology
`Q9STI6`	Arabidopsis thaliana	UDP-glucuronate 4-epimerase 5	72.849%	Swiss-Prot	strong database homology

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