LXL04_012023 | RubberDandelionOmics

Gene overview

LXL04_012023

Reference: OH-1004 Chr: Chr03 Coordinates: 4939498-4943366 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2208 bp · LXL04_012023|LXL04_012023|OH1004|cDNA

ATGGCAATGAACATACCTTTATTCATCATCCTCACAATATCCATCTATGCATGTCTTTCCTCCGCCTTACCAAACGACATGAACTGGTGGTGCGACCAAACTCCAAACCCAGAGCCATGCAAGCATTTCATGAGCACCAAAACGCAAAAACTTGGTGTCGTTTTAGGAAAATCCAATTTCCGGAAAGCTTCTTTGGAATTAGCCATGGAGAGGGCTCTTAATGCCGAGAGTCACACCAAATGGCTCGGCCAAAGGTGCCG...

CDS

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2208 bp · LXL04_012023|LXL04_012023|OH1004|CDS

ATGGCAATGAACATACCTTTATTCATCATCCTCACAATATCCATCTATGCATGTCTTTCCTCCGCCTTACCAAACGACATGAACTGGTGGTGCGACCAAACTCCAAACCCAGAGCCATGCAAGCATTTCATGAGCACCAAAACGCAAAAACTTGGTGTCGTTTTAGGAAAATCCAATTTCCGGAAAGCTTCTTTGGAATTAGCCATGGAGAGGGCTCTTAATGCCGAGAGTCACACCAAATGGCTCGGCCAAAGGTGCCG...

Protein

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735 aa · LXL04_012023|LXL04_012023|OH1004|PROTEIN

MAMNIPLFIILTISIYACLSSALPNDMNWWCDQTPNPEPCKHFMSTKTQKLGVVLGKSNFRKASLELAMERALNAESHTKWLGQRCRNKQEKAAWSDCLELYESTISQLNQTIDPTIKCTDFDTQTWLSTALTNLETCRAGFMELNASDYMLPLMNNNVTKLISNTLALNNGSKKPYESYKDGFPTWVLPGDRKLLQTAAPRANIVVAQDGSGNYRTIKAAVDAAAKRSGSGRFVIYIKKGVYRENVEIGNKMKNIMLVG...

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_012023`
TK1151 ID	TkA02G592190
OH-1004 ID	LXL04_012023
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	97.100
Protein coverage (%)	TK1151 99.031 / OH-1004 69.252 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_012023

Location Chr03:4939498-4943366 (-)

Description Similar to PECS-2.1: Pectinesterase 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g45220`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At3g47400`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At5g51490`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At5g51500`	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_012023 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009617 response to bacterium Biological Process

GO:0009620 response to fungus 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:0005576 extracellular region Cellular Component

GO:0010494 cytoplasmic stress granule Cellular Component

GO:0048046 apoplast 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:AT2G45220

ath:AT3G47400

ath:AT5G51490

ath:AT5G51500

cit:102577945

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.

Cell membrane0.281

Rank 1 · LXL04_012023 · OH-1004

Extracellular0.264

Rank 2 · LXL04_012023 · OH-1004

Lysosome / Vacuole0.138

Rank 3 · LXL04_012023 · OH-1004

Endoplasmic reticulum0.114

Rank 4 · LXL04_012023 · OH-1004

Cytoplasm0.095

Rank 5 · LXL04_012023 · 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.

PF04043.21PMEI27-169 aa

PF01095.26Pectinesterase204-491 aa

PF13966.12zf-RVT596-638 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012023	`PF04043.21`	PMEI	27	169	1.3e-29	104.1
LXL04_012023	`PF01095.26`	Pectinesterase	204	491	7.5e-140	465.6
LXL04_012023	`PF13966.12`	zf-RVT	596	638	7.5e-06	27.2

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
`O22149`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 17	62.603%	Swiss-Prot	moderate database homology
`Q9STY3`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 33	51.072%	Swiss-Prot	moderate database homology
`Q9FHN5`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 59	53.542%	Swiss-Prot	moderate database homology
`Q9FHN4`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 60	52.000%	Swiss-Prot	moderate database homology

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