LXL04_019298 | RubberDandelionOmics

Gene overview

LXL04_019298

Reference: OH-1004 Chr: Chr04 Coordinates: 28349006-28351730 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1047 bp · LXL04_019298|LXL04_019298|OH1004|cDNA

ATGAGCGATGGACAGCGGTTTCAGCTGGGAACGATCGGGGCGTTAGGTCTGTCGGTGGTTTCTTCTGTTTCGATTGTAATTTGCAACAAAGCGCTCATCAGCACCCTCGGTTTTACTTTCGCTACAACATTGACAAGCTGGCATCTTTTAGTCACATTTTGTTCCCTACATGTGGCATTATGGATGAAATTTTTTGAGCACAAACcttttgatccaaaagctgtCATGGGCTTTGGCATATTGAACGGGACCTCAATTGG...

CDS

Download CDS FASTA

1047 bp · LXL04_019298|LXL04_019298|OH1004|CDS

ATGAGCGATGGACAGCGGTTTCAGCTGGGAACGATCGGGGCGTTAGGTCTGTCGGTGGTTTCTTCTGTTTCGATTGTAATTTGCAACAAAGCGCTCATCAGCACCCTCGGTTTTACTTTCGCTACAACATTGACAAGCTGGCATCTTTTAGTCACATTTTGTTCCCTACATGTGGCATTATGGATGAAATTTTTTGAGCACAAACCTTTTGATCCAAAAGCTGTCATGGGCTTTGGCATATTGAACGGGACCTCAATTGG...

Protein

Download Protein FASTA

348 aa · LXL04_019298|LXL04_019298|OH1004|PROTEIN

MSDGQRFQLGTIGALGLSVVSSVSIVICNKALISTLGFTFATTLTSWHLLVTFCSLHVALWMKFFEHKPFDPKAVMGFGILNGTSIGLLNLSLGFNSVGFYQMTKLAIIPCTVLLETLFFSKQFSKKIRFSLTILLMGVGIATVTDLQLNILGSVLSLLAVITTCIAQIMTNTIQKKYKVSSTQLLYQSCPYQALTLFLIGPFLDALLTNKNVFAFKYTPLVLAFIVLSCLISVSVNFSTFLVIGKTSPVTYQVLGHLKT...

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_019298`
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_019298

Location Chr04:28349006-28351730 (-)

Description Similar to UXT3: UDP-xylose transporter 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g06890`	Nucleotide-sugar transporter that transports UDP-xylose and UMP in a strict counter-exchange mode.	Identification and Characterization of a Golgi-Localized UDP-Xylose Transporter Family from Arabidopsis.2015 · DOI: 10.1105/tpc.114.133827
`At2g30460`	Nucleotide-sugar transporter that transports UDP-xylose and UMP in a strict counter-exchange mode.	No verified direct reference in this release
`At2g28315`	Nucleotide-sugar transporter that transports UDP-xylose and UMP in a strict counter-exchange mode.	Identification and Characterization of a Golgi-Localized UDP-Xylose Transporter Family from Arabidopsis.2015 · DOI: 10.1105/tpc.114.133827
`At4g09810`	Nucleotide-sugar transporter that transports UDP-rhamnose or UDP-galactose and UMP in a strict counter-exchange mode.	No verified direct reference in this release
`At1g34020`	Nucleotide-sugar transporter that transports UDP-rhamnose or UDP-galactose and UMP in a strict counter-exchange mode.	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_019298 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009834 plant-type secondary cell wall biogenesis Biological Process

GO:0015790 UDP-xylose transmembrane transport Biological Process

GO:0055085 transmembrane transport Biological Process

GO:1900030 regulation of pectin biosynthetic process Biological Process

GO:1904659 D-glucose transmembrane transport Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0005768 endosome Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0005886 plasma membrane Cellular Component

KEGG gene cross-reference

ath:AT1G06890

ath:AT1G34020

ath:AT2G28315

ath:AT2G30460

ath:AT4G09810

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 apparatus0.670

Rank 1 · LXL04_019298 · OH-1004

Endoplasmic reticulum0.188

Rank 2 · LXL04_019298 · OH-1004

Cytoplasm0.137

Rank 3 · LXL04_019298 · OH-1004

Lysosome / Vacuole0.078

Rank 4 · LXL04_019298 · OH-1004

Cell membrane0.055

Rank 5 · LXL04_019298 · 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.

PF03151.23TPT21-294 aa

PF00892.27EamA158-294 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_019298	`PF03151.23`	TPT	21	294	1.9e-17	64.3
LXL04_019298	`PF00892.27`	EamA	158	294	5e-07	30.8

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
`Q8RXL8`	Arabidopsis thaliana	UDP-xylose transporter 3	81.616%	Swiss-Prot	strong database homology
`Q8GUJ1`	Arabidopsis thaliana	UDP-xylose transporter 2	81.127%	Swiss-Prot	strong database homology
`F4IHS9`	Arabidopsis thaliana	UDP-xylose transporter 1	68.502%	Swiss-Prot	strong database homology
`Q9SZ96`	Arabidopsis thaliana	UDP-rhamnose/UDP-galactose transporter 5	39.640%	Swiss-Prot	moderate database homology
`Q9FDZ5`	Arabidopsis thaliana	UDP-rhamnose/UDP-galactose transporter 6	38.095%	Swiss-Prot	moderate database homology

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