LXL04_002961 | RubberDandelionOmics

Gene overview

LXL04_002961

Reference: OH-1004 Chr: Chr01 Coordinates: 62691065-62695578 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1569 bp · LXL04_002961|LXL04_002961|OH1004|cDNA

ATGGATGTGAGGCAAATCATGGGAGCAGTTCTAACATTCTCCATGTTCGTGATGCTTGGTAACATGATCAAAAGAGATCACTTTGATGGCGATGTTTTGCTCGATGTCCCCGTGGTAGCAAATGTCCCCGTGGTAGCAAATGTTGAACAAGATAATCTCGTCAAAGTTGACCAAGATAACCTCTACAAAGTGTATAGGCATAGTCTTCTTCAACTTCCTAATGAAGCATCAAAAGCCGGTCAGCGGCTAAAACTTTGTTG...

CDS

Download CDS FASTA

1569 bp · LXL04_002961|LXL04_002961|OH1004|CDS

ATGGATGTGAGGCAAATCATGGGAGCAGTTCTAACATTCTCCATGTTCGTGATGCTTGGTAACATGATCAAAAGAGATCACTTTGATGGCGATGTTTTGCTCGATGTCCCCGTGGTAGCAAATGTCCCCGTGGTAGCAAATGTTGAACAAGATAATCTCGTCAAAGTTGACCAAGATAACCTCTACAAAGTGTATAGGCATAGTCTTCTTCAACTTCCTAATGAAGCATCAAAAGCCGGTCAGCGGCTAAAACTTTGTTG...

Protein

Download Protein FASTA

522 aa · LXL04_002961|LXL04_002961|OH1004|PROTEIN

MDVRQIMGAVLTFSMFVMLGNMIKRDHFDGDVLLDVPVVANVPVVANVEQDNLVKVDQDNLYKVYRHSLLQLPNEASKAGQRLKLCWNNSLQRVSPLVGLRNEGFIMGQAALKAASCKVRKHEKACLENQHVFIPFAFDTFGFLAPEAVDLLNRVQRVMHSNVMTPKSMDVVFQRVSFAIQKGVAAQLVAPKERAPSKGFVTFSLSNGPEYHVSQIANAVLVAKHLGATLVLPEIIGNQGEKRSFEEIYDVEKFVTSMNG...

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_002961`
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_002961

Location Chr01:62691065-62695578 (+)

Description Similar to MSR1: Protein MANNAN SYNTHESIS-RELATED 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g21190`	Glycosyltransferase involved in mannan biosynthesis.	Identification of an additional protein involved in mannan biosynthesis.2013 · DOI: 10.1111/tpj.12019
`At1g51630`	Glycosyltransferase involved in mannan biosynthesis.	Identification of an additional protein involved in mannan biosynthesis.2013 · DOI: 10.1111/tpj.12019
`At1g38065`	O-fucosyltransferase 10.	No verified direct reference in this release
`At1g38131`	O-fucosyltransferase 11.	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_002961 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006004 fucose metabolic process Biological Process

GO:0046354 mannan biosynthetic process Biological Process

GO:0052325 cell wall pectin biosynthetic process Biological Process

GO:0071555 cell wall organization Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0005634 nucleus 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:0009505 plant-type cell wall Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G38065

ath:AT1G38131

ath:AT1G51630

ath:AT3G21190

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 apparatus0.639

Rank 1 · LXL04_002961 · OH-1004

Endoplasmic reticulum0.135

Rank 2 · LXL04_002961 · OH-1004

Extracellular0.090

Rank 3 · LXL04_002961 · OH-1004

Cytoplasm0.089

Rank 4 · LXL04_002961 · OH-1004

Cell membrane0.084

Rank 5 · LXL04_002961 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF10250.16O-FucT214-482 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002961	`PF10250.16`	O-FucT	214	482	1.5e-27	97.9

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
`Q9LU40`	Arabidopsis thaliana	Protein MANNAN SYNTHESIS-RELATED 1	47.904%	Swiss-Prot	moderate database homology
`Q0WPA5`	Arabidopsis thaliana	Protein MANNAN SYNTHESIS-RELATED 2	45.401%	Swiss-Prot	moderate database homology
`Q8LNP3`	Arabidopsis thaliana	O-fucosyltransferase 10	23.684%	Swiss-Prot	weak database homology
`Q8GUM0`	Arabidopsis thaliana	O-fucosyltransferase 11	23.684%	Swiss-Prot	weak database homology

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