LXL04_012224 | RubberDandelionOmics

Gene overview

LXL04_012224

Reference: OH-1004 Chr: Chr03 Coordinates: 8603118-8605571 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1413 bp · LXL04_012224|LXL04_012224|OH1004|cDNA

aTGCATCCCCTTCGCCGGAAAGTCTCCCTCTTCTCCTCCTACACCGCCGCCATGAAACAACGCAAAAACAACAACCTGTCCGTCTTCGTCGTCGTCTTCTCTATTTTCCTATTCGGGTTCTTCATGTACAATGAAGACGTCAAATCCATAGCCGAATTTCCATTCTCCAGGCCTAAATTCGCAACCCACGAAACTTCTATTCAGAAATCGAACGTTGACGGGGTGGTCGAGATCAGTTCCAGAACGACTTTAGTGGTGGA...

CDS

Download CDS FASTA

1413 bp · LXL04_012224|LXL04_012224|OH1004|CDS

ATGCATCCCCTTCGCCGGAAAGTCTCCCTCTTCTCCTCCTACACCGCCGCCATGAAACAACGCAAAAACAACAACCTGTCCGTCTTCGTCGTCGTCTTCTCTATTTTCCTATTCGGGTTCTTCATGTACAATGAAGACGTCAAATCCATAGCCGAATTTCCATTCTCCAGGCCTAAATTCGCAACCCACGAAACTTCTATTCAGAAATCGAACGTTGACGGGGTGGTCGAGATCAGTTCCAGAACGACTTTAGTGGTGGA...

Protein

Download Protein FASTA

470 aa · LXL04_012224|LXL04_012224|OH1004|PROTEIN

MHPLRRKVSLFSSYTAAMKQRKNNNLSVFVVVFSIFLFGFFMYNEDVKSIAEFPFSRPKFATHETSIQKSNVDGVVEISSRTTLVVESKTEDNQVIELPAPVAVAEEVEPEDDEEIEIPPEECDLYDGNWVFDDSTHPLYKEDECEFLTAQVTCMRNGRKDSMYQNWRWQPKNCNLPKFRAKLLLEKLRNKRLMFVGDSLNRNQWESMVCLAQSIIPPGRKSLNKTGSLSIFRIEDYNATVEFYWAPFLVESNSDDPNMH...

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_012224`
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_012224

Location Chr03:8603118-8605571 (-)

Description Similar to ESK1: Protein ESKIMO 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g55990`	Xylan acetyltransferase required for 2-O- and 3-O-monoacetylation of xylosyl residues in xylan.	Arabidopsis ESK1 encodes a novel regulator of freezing tolerance.2007 · DOI: 10.1111/j.1365-313x.2006.02994.x Metabolome and water status phenotyping of Arabidopsis under abiotic stress cues reveals new insight into ESK1 function.2009 · DOI: 10.1111/j.1365-3040.2008.01898.x ESKIMO1 is a key gene involved in water economy as well as cold acclimation and salt tolerance.2008 · DOI: 10.1186/1471-2229-8-125 ESKIMO1 disruption in Arabidopsis alters vascular tissue and impairs water transport.2011 · DOI: 10.1371/journal.pone.0016645 The Arabidopsis DUF231 domain-containing protein ESK1 mediates 2-O- and 3-O-acetylation of xylosyl residues in xylan.2013 · DOI: 10.1093/pcp/pct070 Molecular Mechanism of Polysaccharide Acetylation by the Arabidopsis Xylan O-acetyltransferase XOAT1.2020 · DOI: 10.1105/tpc.20.00028
`At2g40150`	May act as a bridging protein that binds pectin and other cell wall polysaccharides.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0291800`	Xylan acetyltransferase required for 2-O- and 3-O-monoacetylation of xylosyl residues in xylan.	Biochemical characterization of rice xylan O-acetyltransferases.2018 · DOI: 10.1007/s00425-018-2882-1
`Os05g0354400`	Xylan acetyltransferase required for 2-O- and 3-O-monoacetylation of xylosyl residues in xylan.	Biochemical characterization of rice xylan O-acetyltransferases.2018 · DOI: 10.1007/s00425-018-2882-1
`Os01g0830700`	Xylan acetyltransferase required for 2-O- and 3-O-monoacetylation of xylosyl residues in xylan.	Biochemical characterization of rice xylan O-acetyltransferases.2018 · DOI: 10.1007/s00425-018-2882-1

Functional annotation source

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Functional annotation source: OH1004 · LXL04_012224 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009409 response to cold Biological Process

GO:0045492 xylan biosynthetic process Biological Process

GO:0045893 positive regulation of DNA-templated transcription Biological Process

GO:0050826 response to freezing Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0016020 membrane Cellular Component

GO:0016413 O-acetyltransferase activity Molecular Function

GO:1990538 xylan O-acetyltransferase activity Molecular Function

KEGG gene cross-reference

ath:AT2G40150

ath:AT3G55990

dosa:Os03g0291800

dosa:Os05g0354400

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 apparatus0.615

Rank 1 · LXL04_012224 · OH-1004

Cell membrane0.096

Rank 2 · LXL04_012224 · OH-1004

Endoplasmic reticulum0.072

Rank 3 · LXL04_012224 · OH-1004

Extracellular0.049

Rank 4 · LXL04_012224 · OH-1004

Cytoplasm0.032

Rank 5 · LXL04_012224 · 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.

PF14416.12PMR5N121-175 aa

PF13839.13PC-Esterase176-464 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012224	`PF14416.12`	PMR5N	121	175	1.3e-22	80.6
LXL04_012224	`PF13839.13`	PC-Esterase	176	464	2e-94	317.4

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
`Q9LY46`	Arabidopsis thaliana	Xylan O-acetyltransferase 1	72.177%	Swiss-Prot	strong database homology
`Q94K00`	Arabidopsis thaliana	Protein trichome birefringence-like 28	63.445%	Swiss-Prot	strong database homology
`Q10MX2`	Oryza sativa subsp. japonica	Xylan O-acetyltransferase 6	67.422%	Swiss-Prot	strong database homology
`A0A0P0WL81`	Oryza sativa subsp. japonica	Xylan O-acetyltransferase 5	66.857%	Swiss-Prot	strong database homology
`Q8S237`	Oryza sativa subsp. japonica	Xylan O-acetyltransferase 1	48.193%	Swiss-Prot	moderate database homology

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