LXL04_038888 | RubberDandelionOmics

Gene overview

LXL04_038888

Reference: OH-1004 Chr: Chr09 Coordinates: 52612222-52616189 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1791 bp · LXL04_038888|LXL04_038888|OH1004|cDNA

ATGGCCATGGCCTTCTCCAAATTCGTGTTTCTTACTCTCCTTTTCTTACCCTTGTTCATACATGTATCCTCCCAAACCATAAGCCATCAAGAACAAACCATGGAGAATCCATTAATTCTCCAAGCTTGTAGCAATATCAAAGACGAAAGAACATGTCTCTCGAATGTGAAATCGTTTCTTGATAATGACCACCCAAACAACCACAAGCCCGACTCCATCCTGAGAGCCGCCCTCAAGGCAACACTCAAAGAGACACATGT...

CDS

Download CDS FASTA

1791 bp · LXL04_038888|LXL04_038888|OH1004|CDS

ATGGCCATGGCCTTCTCCAAATTCGTGTTTCTTACTCTCCTTTTCTTACCCTTGTTCATACATGTATCCTCCCAAACCATAAGCCATCAAGAACAAACCATGGAGAATCCATTAATTCTCCAAGCTTGTAGCAATATCAAAGACGAAAGAACATGTCTCTCGAATGTGAAATCGTTTCTTGATAATGACCACCCAAACAACCACAAGCCCGACTCCATCCTGAGAGCCGCCCTCAAGGCAACACTCAAAGAGACACATGT...

Protein

Download Protein FASTA

596 aa · LXL04_038888|LXL04_038888|OH1004|PROTEIN

MAMAFSKFVFLTLLFLPLFIHVSSQTISHQEQTMENPLILQACSNIKDERTCLSNVKSFLDNDHPNNHKPDSILRAALKATLKETHVAIQSFTRFTSLSSSSREQMAIEDCKELLDFSVSELAWSLAEMKEIQAGSQDPHYKNNLKSWLSAALSNQDTCLEGFEGTDRHLESFIRGSLMQVTQLISNVLSLYTQLHVLPFKPPRNHDDDTTNTFFPKWINEGDRNLMLGSPNGMHVDVVVALDGSGRYRSISEAINDAPN...

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_038888`
TK1151 ID	TkA04G474640
OH-1004 ID	LXL04_038888
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.300
Protein coverage (%)	TK1151 100.000 / OH-1004 90.772 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_038888

Location Chr09:52612222-52616189 (+)

Description Similar to PME22: Putative pectinesterase/pectinesterase inhibitor 22

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g05620`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At3g43270`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At4g33220`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	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_038888 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0042545 cell wall modification Biological Process

GO:0045490 pectin catabolic process Biological Process

GO:0050829 defense response to Gram-negative bacterium Biological Process

GO:0005576 extracellular region Cellular Component

GO:0004857 enzyme inhibitor activity Molecular Function

GO:0030599 pectinesterase activity Molecular Function

GO:0046910 pectinesterase inhibitor activity Molecular Function

KEGG gene cross-reference

ath:AT3G05620

ath:AT3G43270

ath:AT4G33220

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.

Extracellular0.370

Rank 1 · LXL04_038888 · OH-1004

Lysosome / Vacuole0.195

Rank 2 · LXL04_038888 · OH-1004

Cell membrane0.161

Rank 3 · LXL04_038888 · OH-1004

Cytoplasm0.124

Rank 4 · LXL04_038888 · OH-1004

Endoplasmic reticulum0.120

Rank 5 · LXL04_038888 · 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.

PF04043.21PMEI38-191 aa

PF01095.26Pectinesterase237-524 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_038888	`PF04043.21`	PMEI	38	191	5.6e-29	102.0
LXL04_038888	`PF01095.26`	Pectinesterase	237	524	3.2e-141	470.0

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
`Q9M9W7`	Arabidopsis thaliana	Putative pectinesterase/pectinesterase inhibitor 22	64.825%	Swiss-Prot	strong database homology
`Q9LXK7`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 32	52.066%	Swiss-Prot	strong database homology
`Q9SMY7`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 44	51.975%	Swiss-Prot	strong database homology

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