LXL04_016245 | RubberDandelionOmics

Gene overview

LXL04_016245

Reference: OH-1004 Chr: Chr03 Coordinates: 116411712-116414442 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1509 bp · LXL04_016245|LXL04_016245|OH1004|cDNA

ATGGTCCAAAAAGAGACGAGATTTGGTAAAACGGAGAAGGGAAGAGGAGGGAGGCTAGTTCTGTTTGCAACTCAAACACTTTGTGCCTTTTTTCTTTTTAGTTTGCTTTACACAGAATTGACCTTTAAGGGTACTTCCACCCCTTCTCAACAATTAAAATTGGATATTGTAGTTACTGGGAGACAAATATTATCAGACTGGAAACCTTATGATATCAGTAACGCAGTTAAAAAGGATGTTAGTGCACCAGTTAAGAAAAA...

CDS

Download CDS FASTA

1509 bp · LXL04_016245|LXL04_016245|OH1004|CDS

ATGGTCCAAAAAGAGACGAGATTTGGTAAAACGGAGAAGGGAAGAGGAGGGAGGCTAGTTCTGTTTGCAACTCAAACACTTTGTGCCTTTTTTCTTTTTAGTTTGCTTTACACAGAATTGACCTTTAAGGGTACTTCCACCCCTTCTCAACAATTAAAATTGGATATTGTAGTTACTGGGAGACAAATATTATCAGACTGGAAACCTTATGATATCAGTAACGCAGTTAAAAAGGATGTTAGTGCACCAGTTAAGAAAAA...

Protein

Download Protein FASTA

502 aa · LXL04_016245|LXL04_016245|OH1004|PROTEIN

MVQKETRFGKTEKGRGGRLVLFATQTLCAFFLFSLLYTELTFKGTSTPSQQLKLDIVVTGRQILSDWKPYDISNAVKKDVSAPVKKNDRNQSLQFLLTRLLGGEDRKKLDLTGFACDNSFSSVICVASNPVKIDMSKIQVHLQPSQSNLTLTAGINSTTVVRPYAMQESPYVMNYITPVTITTAEPARRTCDHNHQHPAVIFSSGGYTGNLFHEFNENIIPLFITTRLFRSRVHFVVVDHKPSFLQKYRRVFPRLSDHEI...

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_016245`
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_016245

Location Chr03:116411712-116414442 (+)

Description Similar to XAT2: Alpha-1,3-arabinosyltransferase XAT2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g10320`	Glycosyletransferase required for the proper composition and structural properties of released seed coat mucilage.	Highly Branched Xylan Made by IRREGULAR XYLEM14 and MUCILAGE-RELATED21 Links Mucilage to Arabidopsis Seeds.2015 · DOI: 10.1104/pp.15.01441 Xylans Provide the Structural Driving Force for Mucilage Adhesion to the Arabidopsis Seed Coat.2016 · DOI: 10.1104/pp.16.00211

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0330200`	Glycosyltransferase involved in the arabinosylation of xylan, the major hemicellulose (non-cellulosic component) of primary and secondary walls of angiosperms.	No verified direct reference in this release
`Os03g0567600`	Glycosyltransferase involved in the arabinosylation of xylan, the major hemicellulose (non-cellulosic component) of primary and secondary walls of angiosperms.	No verified direct reference in this release
`Os06g0707000`	Glycosyltransferase involved in the xylosylation of xylan, the major hemicellulose (non-cellulosic component) of primary and secondary walls of angiosperms.	A Novel Rice Xylosyltransferase Catalyzes the Addition of 2-O-Xylosyl Side Chains onto the Xylan Backbone.2018 · DOI: 10.1093/pcp/pcy003
`Os02g0329800`	Glycosyltransferase involved in the xylosylation of xylan, the major hemicellulose (non-cellulosic component) of primary and secondary walls of angiosperms.	XAX1 from glycosyltransferase family 61 mediates xylosyltransfer to rice xylan.2012 · DOI: 10.1073/pnas.1202079109

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_016245 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009664 plant-type cell wall organization Biological Process

GO:0010192 mucilage biosynthetic process Biological Process

GO:0048354 mucilage biosynthetic process involved in seed coat development Biological Process

GO:0071555 cell wall organization Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0016757 glycosyltransferase activity Molecular Function

GO:0035252 UDP-xylosyltransferase activity Molecular Function

GO:0047517 1,4-beta-D-xylan synthase activity Molecular Function

GO:0052636 arabinosyltransferase activity Molecular Function

KEGG gene cross-reference

ath:AT3G10320

dosa:Os02g0329800

dosa:Os02g0330200

dosa:Os03g0567600

dosa:Os06g0707000

osa:4329203

osa:4329205

osa:4333275

osa:4342010

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.

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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 apparatus0.712

Rank 1 · LXL04_016245 · OH-1004

Endoplasmic reticulum0.108

Rank 2 · LXL04_016245 · OH-1004

Cell membrane0.076

Rank 3 · LXL04_016245 · OH-1004

Extracellular0.066

Rank 4 · LXL04_016245 · OH-1004

Cytoplasm0.063

Rank 5 · LXL04_016245 · 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.

PF04577.20Glyco_transf_61304-400 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_016245	`PF04577.20`	Glyco_transf_61	304	400	7.4e-11	43.2

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
`Q9SS43`	Arabidopsis thaliana	Xylan glycosyltransferase MUCI21	32.824%	Swiss-Prot	moderate database homology
`Q6ZFR0`	Oryza sativa subsp. japonica	Alpha-1,3-arabinosyltransferase XAT2	35.433%	Swiss-Prot	moderate database homology
`Q10I20`	Oryza sativa subsp. japonica	Alpha-1,3-arabinosyltransferase XAT3	35.433%	Swiss-Prot	moderate database homology
`Q5Z8T8`	Oryza sativa subsp. japonica	Beta-1,2-xylosyltransferase XYXT1	35.354%	Swiss-Prot	moderate database homology
`Q6Z7I3`	Oryza sativa subsp. japonica	Beta-1,2-xylosyltransferease XAX1	33.831%	Swiss-Prot	moderate database homology

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