LXL04_012029 | RubberDandelionOmics

Gene overview

LXL04_012029

Reference: OH-1004 Chr: Chr03 Coordinates: 5126423-5127001 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

579 bp · LXL04_012029|LXL04_012029|OH1004|cDNA

ATGGAACTCAAATTTCTCATGATACTATTTCTTGCCACACTTCTATTGGCTCCAGTTTCATCTGCCAGTGTTGCTCAACAAAACACATACTCTACATTCGTCAAAACCTCATGCAGCTCCGTCACTTACTCCGCCGTCTGCCTGAAAACCCTCCTCCCCTACGCCTCCGCCGTCAAGACCAACCCCCTTAAACTGGTCAACGTCGCCCTGTACACCACCCTCAGATCCGCCAACGCCACCCTCATCACCGTCACCAACTT...

CDS

Download CDS FASTA

579 bp · LXL04_012029|LXL04_012029|OH1004|CDS

ATGGAACTCAAATTTCTCATGATACTATTTCTTGCCACACTTCTATTGGCTCCAGTTTCATCTGCCAGTGTTGCTCAACAAAACACATACTCTACATTCGTCAAAACCTCATGCAGCTCCGTCACTTACTCCGCCGTCTGCCTGAAAACCCTCCTCCCCTACGCCTCCGCCGTCAAGACCAACCCCCTTAAACTGGTCAACGTCGCCCTGTACACCACCCTCAGATCCGCCAACGCCACCCTCATCACCGTCACCAACTT...

Protein

Download Protein FASTA

192 aa · LXL04_012029|LXL04_012029|OH1004|PROTEIN

MELKFLMILFLATLLLAPVSSASVAQQNTYSTFVKTSCSSVTYSAVCLKTLLPYASAVKTNPLKLVNVALYTTLRSANATLITVTNLSKSKQITKWESAILKDCIGHIKDSMDEIKDSIKAISRLPKSADKHFVISNAQTWTSAAITNENSCLDGFADGKISSTIKKKIKNSVVSLARVSSNALYLINNLTV

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_012029`
TK1151 ID	TkA02G591900
OH-1004 ID	LXL04_012029
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.000
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_012029

Location Chr03:5126423-5127001 (-)

Description Similar to PMEI4: Pectinesterase inhibitor 4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g25250`	Pectin methylesterase (PME) inhibitor that can target the root-expressed PME17 and PME3 in a pH-dependent manner, mainly in slightly acidic conditions (pH 6.3 and 5.0) but not at pH 7.5; this processus relies on changes in the protonation of amino acids involved in intermolecular and intramolecular interactions.	Arabidopsis PME17 Activity can be Controlled by Pectin Methylesterase Inhibitor4.2015 · DOI: 10.4161/15592324.2014.983351 Combined Experimental and Computational Approaches Reveal Distinct pH Dependence of Pectin Methylesterase Inhibitors.2017 · DOI: 10.1104/pp.16.01790
`At4g25260`	Pectin methylesterase (PME) inhibitor that can target PME3 in a pH-dependent manner, mainly in slightly acidic conditions (pH 6.0 and 5.0) but not at pH 7.0.	Tuning of Pectin Methylesterification: PECTIN METHYLESTERASE INHIBITOR 7 MODULATES THE PROCESSIVE ACTIVITY OF CO-EXPRESSED PECTIN METHYLESTERASE 3 IN A pH-DEPENDENT MANNER.2015 · DOI: 10.1074/jbc.m115.639534 Structural and dynamical characterization of the pH-dependence of the pectin methylesterase-pectin methylesterase inhibitor complex.2017 · DOI: 10.1074/jbc.ra117.000197
`At3g47380`	Pectin methylesterase (PME) inhibitor involved in the maintenance of cell wall integrity in response to necrotrophic pathogens.	No verified direct reference in this release
`At1g62760`	Pectin methylesterase (PME) inhibitor involved in the maintenance of cell wall integrity in response to necrotrophic pathogens.	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_012029 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009641 shade avoidance Biological Process

GO:0009827 plant-type cell wall modification Biological Process

GO:0071669 plant-type cell wall organization or biogenesis Biological Process

GO:2000280 regulation of root development Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0048046 apoplast Cellular Component

GO:0004857 enzyme inhibitor activity Molecular Function

GO:0046910 pectinesterase inhibitor activity Molecular Function

KEGG gene cross-reference

ath:AT1G62760

ath:AT3G47380

ath:AT4G25250

ath:AT4G25260

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.

Extracellular0.550

Rank 1 · LXL04_012029 · OH-1004

Endoplasmic reticulum0.186

Rank 2 · LXL04_012029 · OH-1004

Cytoplasm0.125

Rank 3 · LXL04_012029 · OH-1004

Cell membrane0.091

Rank 4 · LXL04_012029 · OH-1004

Lysosome / Vacuole0.076

Rank 5 · LXL04_012029 · 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.

PF04043.21PMEI33-186 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012029	`PF04043.21`	PMEI	33	186	8.5e-30	104.7

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
`Q9SB38`	Arabidopsis thaliana	Pectinesterase inhibitor 4	32.984%	Swiss-Prot	moderate database homology
`Q9SB37`	Arabidopsis thaliana	Pectinesterase inhibitor 7	33.862%	Swiss-Prot	moderate database homology
`Q9STY5`	Arabidopsis thaliana	Pectinesterase inhibitor 11	37.234%	Swiss-Prot	moderate database homology
`Q9SI74`	Arabidopsis thaliana	Pectinesterase inhibitor 10	38.608%	Swiss-Prot	moderate database homology

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