LXL04_004903 | RubberDandelionOmics

Gene overview

LXL04_004903

Reference: OH-1004 Chr: Chr01 Coordinates: 149935819-149937899 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1308 bp · LXL04_004903|LXL04_004903|OH1004|cDNA

ATGAACAATGTTAAGCAATTACACAAACAATCAGGTGCAAATTTTAGAAGAGATGAAGAAATGTCTACCCATGAAATCCCACCTTACTCACCCAAATCCCTCAAACACACATCCGCCGCCAGATCTCTTTCGAGATCCGTCAATTACATCCTCAAAGAACAACGCCTTCACTTCACCCTAGTAGGAATCCTCATCGGCTCCGTCTTCTTCATCTACAAACCATCATTATCCACCATTTCCACAATTGACACCATTACGAG...

CDS

Download CDS FASTA

1308 bp · LXL04_004903|LXL04_004903|OH1004|CDS

ATGAACAATGTTAAGCAATTACACAAACAATCAGGTGCAAATTTTAGAAGAGATGAAGAAATGTCTACCCATGAAATCCCACCTTACTCACCCAAATCCCTCAAACACACATCCGCCGCCAGATCTCTTTCGAGATCCGTCAATTACATCCTCAAAGAACAACGCCTTCACTTCACCCTAGTAGGAATCCTCATCGGCTCCGTCTTCTTCATCTACAAACCATCATTATCCACCATTTCCACAATTGACACCATTACGAG...

Protein

Download Protein FASTA

435 aa · LXL04_004903|LXL04_004903|OH1004|PROTEIN

MNNVKQLHKQSGANFRRDEEMSTHEIPPYSPKSLKHTSAARSLSRSVNYILKEQRLHFTLVGILIGSVFFIYKPSLSTISTIDTITRKEIPSMRVVSFSQPTTYGATGRIPVGIARKRMRVVVTGGSGFVGSHLVDKLMARGDDVIVIDNFFTGRKENVVHHFDNPRFELIRHDVVEPILLEVDQIYHLACPASPVHYKYNPVKTIKTNVMGTLNMLGLAKRIGARFLLTSTSEVYGDPLEHPQKETYWGHVNPIGVRSC...

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_004903`
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_004903

Location Chr01:149935819-149937899 (-)

Description Similar to UXS1: UDP-glucuronic acid decarboxylase 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g53520`	Catalyzes the NAD-dependent decarboxylation of UDP-glucuronic acid to UDP-xylose.	No verified direct reference in this release
`At3g62830`	Catalyzes the NAD-dependent decarboxylation of UDP-glucuronic acid to UDP-xylose.	Biosynthesis of UDP-xylose: characterization of membrane-bound AtUxs2.2005 · DOI: 10.1007/s00425-004-1471-7
`At2g47650`	Catalyzes the NAD-dependent decarboxylation of UDP-glucuronic acid to UDP-xylose.	No verified direct reference in this release
`At3g46440`	Catalyzes the NAD-dependent decarboxylation of UDP-glucuronic acid to UDP-xylose.	No verified direct reference in this release
`At2g28760`	Catalyzes the NAD-dependent decarboxylation of UDP-glucuronic acid to UDP-xylose.	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_004903 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0019305 dTDP-rhamnose biosynthetic process Biological Process

GO:0033320 UDP-D-xylose biosynthetic process Biological Process

GO:0042732 D-xylose metabolic process Biological Process

GO:0045492 xylan biosynthetic process Biological Process

GO:0000138 Golgi trans cisterna Cellular Component

GO:0000139 Golgi membrane Cellular Component

GO:0000325 plant-type vacuole Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005768 endosome Cellular Component

GO:0005773 vacuole Cellular Component

GO:0005777 peroxisome Cellular Component

GO:0005794 Golgi apparatus Cellular Component

KEGG gene cross-reference

ath:AT2G28760

ath:AT2G47650

ath:AT3G46440

ath:AT3G53520

ath:AT3G62830

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.

Golgi apparatus0.422

Rank 1 · LXL04_004903 · OH-1004

Endoplasmic reticulum0.326

Rank 2 · LXL04_004903 · OH-1004

Cytoplasm0.103

Rank 3 · LXL04_004903 · OH-1004

Lysosome / Vacuole0.088

Rank 4 · LXL04_004903 · OH-1004

Cell membrane0.069

Rank 5 · LXL04_004903 · 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.

PF04321.24RmlD_sub_bind119-376 aa

PF01370.28Epimerase121-354 aa

PF02719.22Polysacc_synt_2121-232 aa

PF01073.263Beta_HSD122-336 aa

PF16363.12GDP_Man_Dehyd123-417 aa

PF07993.19NAD_binding_4176-288 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_004903	`PF04321.24`	RmlD_sub_bind	119	376	2.2e-10	40.8
LXL04_004903	`PF01370.28`	Epimerase	121	354	1.5e-47	162.7
LXL04_004903	`PF02719.22`	Polysacc_synt_2	121	232	4.4e-07	30.1
LXL04_004903	`PF01073.26`	3Beta_HSD	122	336	9.4e-14	51.8
LXL04_004903	`PF16363.12`	GDP_Man_Dehyd	123	417	2.1e-55	189.2
LXL04_004903	`PF07993.19`	NAD_binding_4	176	288	1.8e-12	47.7

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q8VZC0`	Arabidopsis thaliana	UDP-glucuronic acid decarboxylase 1	77.500%	Swiss-Prot	strong database homology
`Q9LZI2`	Arabidopsis thaliana	UDP-glucuronic acid decarboxylase 2	72.048%	Swiss-Prot	strong database homology
`Q8S8T4`	Arabidopsis thaliana	UDP-glucuronic acid decarboxylase 4	70.093%	Swiss-Prot	strong database homology
`Q9SN95`	Arabidopsis thaliana	UDP-glucuronic acid decarboxylase 5	71.154%	Swiss-Prot	strong database homology
`Q9ZV36`	Arabidopsis thaliana	UDP-glucuronic acid decarboxylase 6	71.753%	Swiss-Prot	strong database homology

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