LXL04_005325 | RubberDandelionOmics

Gene overview

LXL04_005325

Reference: OH-1004 Chr: Chr01 Coordinates: 160436603-160439302 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1077 bp · LXL04_005325|LXL04_005325|OH1004|cDNA

ATGGATAACGGCCCTCCATTCTACAGGGAGGGCTTGCCAACGACAATATCTAGAACAGAAAAACAACGTTGGAGATCATCAGCGTCATCATCAAAAAGTTCTTCTTCTAGACCTTCAATTCTCTTGGCGTTCTTCTCTTGTCTCGCTTGGCTTTACATAGCCGGCAGGTTATGGCAAGATGCAGAGAACAGAACGTTACTAGCTAATCTGCTCATTAAGAATTCTTCCGAGAGACCAAAAGTTCTTACTGTTGAAGACAA...

CDS

Download CDS FASTA

1077 bp · LXL04_005325|LXL04_005325|OH1004|CDS

ATGGATAACGGCCCTCCATTCTACAGGGAGGGCTTGCCAACGACAATATCTAGAACAGAAAAACAACGTTGGAGATCATCAGCGTCATCATCAAAAAGTTCTTCTTCTAGACCTTCAATTCTCTTGGCGTTCTTCTCTTGTCTCGCTTGGCTTTACATAGCCGGCAGGTTATGGCAAGATGCAGAGAACAGAACGTTACTAGCTAATCTGCTCATTAAGAATTCTTCCGAGAGACCAAAAGTTCTTACTGTTGAAGACAA...

Protein

Download Protein FASTA

358 aa · LXL04_005325|LXL04_005325|OH1004|PROTEIN

MDNGPPFYREGLPTTISRTEKQRWRSSASSSKSSSSRPSILLAFFSCLAWLYIAGRLWQDAENRTLLANLLIKNSSERPKVLTVEDKLMVLGCKDLERRIVETEMEITLAKSQGFLNNQLKSSSNKKLLAVIGIYTGFGSKLRRNSFRGSWIPDGDSLKKLEERGIVIRFVIGRSPNRGDSLDRNIDEENRTTKDFLILDAHEEADEESAKKAKFFFSTAVQNWDAEFYVKVDNNINLNLDGLIELLETRRGQDSLYIGC...

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_005325`
TK1151 ID	TkA01G066230
OH-1004 ID	LXL04_005325
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.100
Protein coverage (%)	TK1151 96.056 / OH-1004 95.251 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_005325

Location Chr01:160436603-160439302 (+)

Description Similar to HPGT3: Hydroxyproline O-galactosyltransferase HPGT3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g25300`	Possesses hydroxyproline O-galactosyltransferase activity.	Identification of three potent hydroxyproline O-galactosyltransferases in Arabidopsis.2015 · DOI: 10.1111/tpj.12764
`At4g32120`	Possesses hydroxyproline O-galactosyltransferase activity.	Identification of three potent hydroxyproline O-galactosyltransferases in Arabidopsis.2015 · DOI: 10.1111/tpj.12764
`At5g53340`	Possesses hydroxyproline O-galactosyltransferase activity.	No verified direct reference in this release
`At1g05170`	Beta-1,3-galactosyltransferase that transfers galactose from UDP-galactose to substrates with a terminal glycosyl residue.	No verified direct reference in this release
`At1g32930`	Beta-galactosyltransferase involved in elongation of beta-1,6-linked galactan side chains on arabinogalactan proteins.	A galactosyltransferase acting on arabinogalactan protein glycans is essential for embryo development in Arabidopsis.2013 · DOI: 10.1111/tpj.12281 Galactosyltransferases from Arabidopsis thaliana in the biosynthesis of type II arabinogalactan: molecular interaction enhances enzyme activity.2014 · DOI: 10.1186/1471-2229-14-90

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_005325 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009101 glycoprotein biosynthetic process Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0010208 pollen wall assembly Biological Process

GO:0010405 arabinogalactan protein metabolic process Biological Process

GO:0030244 cellulose biosynthetic process Biological Process

GO:0180062 protein O-linked glycosylation via galactose Biological Process

GO:0000139 Golgi membrane 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:0008378 galactosyltransferase activity Molecular Function

KEGG gene cross-reference

ath:AT1G05170

ath:AT1G32930

ath:AT2G25300

ath:AT4G32120

ath:AT5G53340

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 apparatus0.813

Rank 1 · LXL04_005325 · OH-1004

Cell membrane0.067

Rank 2 · LXL04_005325 · OH-1004

Endoplasmic reticulum0.061

Rank 3 · LXL04_005325 · OH-1004

Extracellular0.046

Rank 4 · LXL04_005325 · OH-1004

Cytoplasm0.039

Rank 5 · LXL04_005325 · 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.

PF13334.12DUF409435-113 aa

PF01762.28Galactosyl_T143-337 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005325	`PF13334.12`	DUF4094	35	113	3.6e-07	31.2
LXL04_005325	`PF01762.28`	Galactosyl_T	143	337	4.2e-33	115.5

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
`Q5XEZ1`	Arabidopsis thaliana	Hydroxyproline O-galactosyltransferase HPGT3	73.273%	Swiss-Prot	strong database homology
`Q94A05`	Arabidopsis thaliana	Hydroxyproline O-galactosyltransferase HPGT2	70.571%	Swiss-Prot	strong database homology
`Q94F27`	Arabidopsis thaliana	Hydroxyproline O-galactosyltransferase HPGT1	43.648%	Swiss-Prot	moderate database homology
`A8MRC7`	Arabidopsis thaliana	Probable beta-1,3-galactosyltransferase 2	39.535%	Swiss-Prot	moderate database homology
`Q9MAP8`	Arabidopsis thaliana	Beta-1,6-galactosyltransferase GALT31A	45.000%	Swiss-Prot	moderate database homology

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