LXL04_006190 | RubberDandelionOmics

Gene overview

LXL04_006190

Reference: OH-1004 Chr: Chr02 Coordinates: 3428701-3430161 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1189 bp · LXL04_006190|LXL04_006190|OH1004|cDNA

ATGTTAACAGAACAAGGCAAAGCACGTGGTAACCATTGTTTTCGATCGCCGGCGGATATTGATCGGAGAAGCTTCTGTGAAGAGTATTATGCTTCGGTTTCAAGCTGTTTTTGTGTTGATTGTTCCTCTTTTTTTGCTTTACACAAATGCGATACGTTCGGTTCCTGAAGTAGAAACCTCCATTAACGAGTATGCTTCAAAGCTCGAAGTTAATGGTCATGGAAGTGATAACGTACAATACCTTGAAGCACCGGAGTATA...

CDS

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1131 bp · LXL04_006190|LXL04_006190|OH1004|CDS

TTGATCGGAGAAGCTTCTGTGAAGAGTATTATGCTTCGGTTTCAAGCTGTTTTTGTGTTGATTGTTCCTCTTTTTTTGCTTTACACAAATGCGATACGTTCGGTTCCTGAAGTAGAAACCTCCATTAACGAGTATGCTTCAAAGCTCGAAGTTAATGGTCATGGAAGTGATAACGTACAATACCTTGAAGCACCGGAGTATAGAAATGGCGATCGATGTGGGGTGTTGGGTACAACCACTGCAGGGTACGGACCTTTTGT...

Protein

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376 aa · LXL04_006190|LXL04_006190|OH1004|PROTEIN

MIGEASVKSIMLRFQAVFVLIVPLFLLYTNAIRSVPEVETSINEYASKLEVNGHGSDNVQYLEAPEYRNGDRCGVLGTTTAGYGPFVVHVAMTLDFEYLRGSVAAVHSILKHSSCPENIYFHFIASESKSPKPDELSRIIETVFPSLAFKVYSFDDRVVKNLISYSIREALEDPLNYARIYLADILDSSVSRVIYLDSDIIVVDDIQKLWSVSLGPTTAIGAPVYCHANFTKYFTDRFWSDSRLSRVFDGKKPCYFNTGV...

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_006190`
TK1151 ID	TkA03G016260
OH-1004 ID	LXL04_006190
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	94.000
Protein coverage (%)	TK1151 100.000 / OH-1004 75.798 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_006190

Location Chr02:3428701-3430161 (-)

Description Similar to GATL10: Probable galacturonosyltransferase-like 10

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g28340`	May be involved in pectin and/or xylans biosynthesis in cell walls.	No verified direct reference in this release
`At1g70090`	May be involved in pectin and/or xylans biosynthesis in cell walls.	No verified direct reference in this release
`At1g24170`	May be involved in pectin and/or xylans biosynthesis in cell walls.	No verified direct reference in this release
`At3g62660`	May be involved in pectin and/or xylans biosynthesis in cell walls.	No verified direct reference in this release
`At4g02130`	May be involved in pectin and/or xylans biosynthesis in cell walls.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_006190 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006979 response to oxidative stress Biological Process

GO:0045489 pectin biosynthetic process Biological Process

GO:0071555 cell wall organization Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0005576 extracellular region Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0047262 polygalacturonate 4-alpha-galacturonosyltransferase activity Molecular Function

KEGG gene cross-reference

ath:AT1G24170

ath:AT1G70090

ath:AT3G28340

ath:AT3G62660

ath:AT4G02130

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 apparatus0.729

Rank 1 · LXL04_006190 · OH-1004

Endoplasmic reticulum0.132

Rank 2 · LXL04_006190 · OH-1004

Cytoplasm0.092

Rank 3 · LXL04_006190 · OH-1004

Cell membrane0.063

Rank 4 · LXL04_006190 · OH-1004

Extracellular0.050

Rank 5 · LXL04_006190 · 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.

PF01501.27Glyco_transf_889-349 aa

PF18404.8Glyco_transf_24177-273 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_006190	`PF01501.27`	Glyco_transf_8	89	349	1.9e-54	185.6
LXL04_006190	`PF18404.8`	Glyco_transf_24	177	273	6.2e-06	26.5

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
`Q9LHD2`	Arabidopsis thaliana	Probable galacturonosyltransferase-like 10	67.925%	Swiss-Prot	strong database homology
`O04536`	Arabidopsis thaliana	Probable galacturonosyltransferase-like 9	60.428%	Swiss-Prot	strong database homology
`O48684`	Arabidopsis thaliana	Probable galacturonosyltransferase-like 8	59.409%	Swiss-Prot	strong database homology
`Q8VYF4`	Arabidopsis thaliana	Probable galacturonosyltransferase-like 7	57.576%	Swiss-Prot	strong database homology
`O04253`	Arabidopsis thaliana	Probable galacturonosyltransferase-like 6	63.462%	Swiss-Prot	strong database homology

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