LXL04_021202 | RubberDandelionOmics

Gene overview

LXL04_021202

Reference: OH-1004 Chr: Chr04 Coordinates: 124400540-124404229 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1608 bp · LXL04_021202|LXL04_021202|OH1004|cDNA

ATGGTTTACATCATAAACTTTTACTATGTTTTCCTGTTCTCATTTCTTCATGTTCTTCTAACCATGTTGATCACTCCTTTCGTATTTGTTCATGGTGTCACTCCTACCACCACCTTTTCAGTATGTAGTCAAACCCCTCATCCAGAAATTTGCATTTCTTTGATGGGAAAGACAAATAAAGTAACCCCATTAGAGGTTCGTGAGACGACCCTTATGACTACTTTGTCTCAAGCCGAGCATGCACATAAGCTTGTATTGGC...

CDS

Download CDS FASTA

1608 bp · LXL04_021202|LXL04_021202|OH1004|CDS

ATGGTTTACATCATAAACTTTTACTATGTTTTCCTGTTCTCATTTCTTCATGTTCTTCTAACCATGTTGATCACTCCTTTCGTATTTGTTCATGGTGTCACTCCTACCACCACCTTTTCAGTATGTAGTCAAACCCCTCATCCAGAAATTTGCATTTCTTTGATGGGAAAGACAAATAAAGTAACCCCATTAGAGGTTCGTGAGACGACCCTTATGACTACTTTGTCTCAAGCCGAGCATGCACATAAGCTTGTATTGGC...

Protein

Download Protein FASTA

535 aa · LXL04_021202|LXL04_021202|OH1004|PROTEIN

MVYIINFYYVFLFSFLHVLLTMLITPFVFVHGVTPTTTFSVCSQTPHPEICISLMGKTNKVTPLEVRETTLMTTLSQAEHAHKLVLAMDLSSFEPKARSAWADCLELYEDSVYQLNRSLGSTNSRDIQTWLSSVSTNHETCQNGFLDFNLSSNLHTFQSSLSGFSNYLTNSLAINKAITLSHVSFSKQLKGRRLMETKDFPKWLSKSDRKLLATPSGDTSANIVVAQDGLGNYKTISEAISAVPKLRNGNSRFVIHVKAG...

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_021202`
TK1151 ID	TkA04G313940
OH-1004 ID	LXL04_021202
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	83.800
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

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Basic Information and Functional Annotation

Gene ID LXL04_021202

Location Chr04:124400540-124404229 (-)

Description Similar to PME6: Probable pectinesterase/pectinesterase inhibitor 6

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g23200`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At2g45220`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At5g53370`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At3g49220`	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_021202 · 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:0010119 regulation of stomatal movement 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:0005634 nucleus Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0010494 cytoplasmic stress granule Cellular Component

KEGG gene cross-reference

ath:AT1G23200

ath:AT2G45220

ath:AT3G49220

ath:AT5G53370

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.

Extracellular0.591

Rank 1 · LXL04_021202 · OH-1004

Cell membrane0.141

Rank 2 · LXL04_021202 · OH-1004

Lysosome / Vacuole0.099

Rank 3 · LXL04_021202 · OH-1004

Cytoplasm0.095

Rank 4 · LXL04_021202 · OH-1004

Endoplasmic reticulum0.095

Rank 5 · LXL04_021202 · 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.

PF04043.21PMEI40-174 aa

PF01095.26Pectinesterase222-520 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021202	`PF04043.21`	PMEI	40	174	2.6e-25	90.1
LXL04_021202	`PF01095.26`	Pectinesterase	222	520	6.5e-140	465.8

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
`O49298`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 6	51.711%	Swiss-Prot	strong database homology
`O22149`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 17	48.889%	Swiss-Prot	moderate database homology
`Q9FK05`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 61	47.701%	Swiss-Prot	moderate database homology
`Q9M3B0`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 34	46.512%	Swiss-Prot	moderate database homology

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