LXL04_002271 | RubberDandelionOmics

Gene overview

LXL04_002271

Reference: OH-1004 Chr: Chr01 Coordinates: 44997755-44999474 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1638 bp · LXL04_002271|LXL04_002271|OH1004|cDNA

ATGTCTTTCTTCCACTTCCTGTTCCTAATACTGTTCCTCACAACACATCAGACTCTCTCAGTCTCAGATCGATCTTCTTTAGATTCGATCTGTAAGTCGACGCCATACCCTGATGTCTGCTTCGAATCATCGAAACTATCGATCTCCATTAACATCAACGTTAATGTCATCCTCCAGTCTCTTCAATCCGCCATAACCGAAGGTGTTAAGCTATTACCTTTATTGTCAAACATCGATGGCGGTAAAATCATCGAGAAACA...

CDS

Download CDS FASTA

1638 bp · LXL04_002271|LXL04_002271|OH1004|CDS

ATGTCTTTCTTCCACTTCCTGTTCCTAATACTGTTCCTCACAACACATCAGACTCTCTCAGTCTCAGATCGATCTTCTTTAGATTCGATCTGTAAGTCGACGCCATACCCTGATGTCTGCTTCGAATCATCGAAACTATCGATCTCCATTAACATCAACGTTAATGTCATCCTCCAGTCTCTTCAATCCGCCATAACCGAAGGTGTTAAGCTATTACCTTTATTGTCAAACATCGATGGCGGTAAAATCATCGAGAAACA...

Protein

Download Protein FASTA

545 aa · LXL04_002271|LXL04_002271|OH1004|PROTEIN

MSFFHFLFLILFLTTHQTLSVSDRSSLDSICKSTPYPDVCFESSKLSISININVNVILQSLQSAITEGVKLLPLLSNIDGGKIIEKQKGTIQDCNELHQITLSSLKKSLSRLSTTSSSSLADARAFLSAAVTNKNTCLEGLESASGPLKPYLVDTITTAYKHVSNSLSLLSASGSNAKESKNHVHVHHKGVEFPKWMHRKDRKIFRNDYDDADDDDDDYDYDYNTLTVANDGSGNFTTITDAINFAPNNSVDRVLIYIKQ...

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_002271`
TK1151 ID	TkA01G443850
OH-1004 ID	LXL04_002271
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	98.200
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_002271

Location Chr01:44997755-44999474 (+)

Description Similar to PME12: Probable pectinesterase/pectinesterase inhibitor 12

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g26440`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At4g02330`	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
`At4g02320`	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_002271 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009409 response to cold Biological Process

GO:0009617 response to bacterium Biological Process

GO:0009620 response to fungus Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009741 response to brassinosteroid Biological Process

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:0050832 defense response to fungus Biological Process

GO:1902074 response to salt Biological Process

GO:0005576 extracellular region Cellular Component

GO:0030599 pectinesterase activity Molecular Function

KEGG gene cross-reference

ath:AT2G26440

ath:AT3G43270

ath:AT4G02320

ath:AT4G02330

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.

Extracellular0.304

Rank 1 · LXL04_002271 · OH-1004

Lysosome / Vacuole0.217

Rank 2 · LXL04_002271 · OH-1004

Cell membrane0.144

Rank 3 · LXL04_002271 · OH-1004

Endoplasmic reticulum0.140

Rank 4 · LXL04_002271 · OH-1004

Cytoplasm0.112

Rank 5 · LXL04_002271 · 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.

PF04043.21PMEI26-169 aa

PF01095.26Pectinesterase226-530 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002271	`PF04043.21`	PMEI	26	169	1.6e-21	77.8
LXL04_002271	`PF01095.26`	Pectinesterase	226	530	1.8e-131	438.0

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`O48711`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 12	61.321%	Swiss-Prot	strong database homology
`Q8RXK7`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 41	41.638%	Swiss-Prot	moderate database homology
`Q9LXK7`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 32	40.250%	Swiss-Prot	moderate database homology
`Q9SMY7`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 44	45.351%	Swiss-Prot	moderate database homology
`O81301`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 40	43.697%	Swiss-Prot	moderate database homology

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