LXL04_021596 | RubberDandelionOmics

Gene overview

LXL04_021596

Reference: OH-1004 Chr: Chr04 Coordinates: 133059038-133062702 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1905 bp · LXL04_021596|LXL04_021596|OH1004|cDNA

ATGTATATCtgtacatatatttatatacattGTTTCTTCAATTTTACCCTCTCGATCATCATCCCCAAATTGATCCTCTCTCTTCTTCATCCAATCCTTCAGAATCTAATAATACTAATAATCATGAATTATGGCAGGCTTGAAGAAAAGGTACAGTCATCGGAACCACCTGAACCAACCCCAAAACGAAAGTCCAGACTTAACCTCCTTCTCATAGCCGGATTCATCCTCATTCTCGCATCGGCGGCGACGGTGACCAC...

CDS

Download CDS FASTA

1905 bp · LXL04_021596|LXL04_021596|OH1004|CDS

ATGTATATCTGTACATATATTTATATACATTGTTTCTTCAATTTTACCCTCTCGATCATCATCCCCAAATTGATCCTCTCTCTTCTTCATCCAATCCTTCAGAATCTAATAATACTAATAATCATGAATTATGGCAGGCTTGAAGAAAAGGTACAGTCATCGGAACCACCTGAACCAACCCCAAAACGAAAGTCCAGACTTAACCTCCTTCTCATAGCCGGATTCATCCTCATTCTCGCATCGGCGGCGACGGTGACCAC...

Protein

Download Protein FASTA

634 aa · LXL04_021596|LXL04_021596|OH1004|PROTEIN

MYICTYIYIHCFFNFTLSIIIPKLILSLLHPILQNLIILIIMNYGRLEEKVQSSEPPEPTPKRKSRLNLLLIAGFILILASAATVTTVLVLRSKHSGGGSGSLTHRQPTKAISRVCSHTLYQNLCVNSFLDFPGSLHASEKELVHISVNMSLHHVGKALYTSTDLNNLEMDGRARSAYNDCVELLEDSVDQLSRSLTSVAPSSSDDTPPQRLGSPEDVMTWLSASLTNQDTCTDGLSETEEGEVRKQMQERLKDLSELVS...

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_021596`
TK1151 ID	TkA05G409100
OH-1004 ID	LXL04_021596
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.800
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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_021596

Location Chr04:133059038-133062702 (-)

Description Similar to PME34: Probable pectinesterase/pectinesterase inhibitor 34

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g49220`	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
`At1g11580`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	Novel role for pectin methylesterase in Arabidopsis: a new function showing ribosome-inactivating protein (RIP) activity.2008 · DOI: 10.1016/j.bbagen.2007.12.013

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_021596 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009617 response to bacterium Biological Process

GO:0010119 regulation of stomatal movement Biological Process

GO:0017148 negative regulation of translation Biological Process

GO:0031640 killing of cells of another organism Biological Process

GO:0042545 cell wall modification Biological Process

GO:0045490 pectin catabolic process Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0000325 plant-type vacuole Cellular Component

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

KEGG gene cross-reference

ath:AT1G11580

ath:AT3G49220

ath:AT5G53370

sly:544016

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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 membrane0.354

Rank 1 · LXL04_021596 · OH-1004

Extracellular0.239

Rank 2 · LXL04_021596 · OH-1004

Lysosome / Vacuole0.190

Rank 3 · LXL04_021596 · OH-1004

Cytoplasm0.144

Rank 4 · LXL04_021596 · OH-1004

Endoplasmic reticulum0.117

Rank 5 · LXL04_021596 · 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.

PF04043.21PMEI111-265 aa

PF01095.26Pectinesterase319-617 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021596	`PF04043.21`	PMEI	111	265	2.3e-34	119.5
LXL04_021596	`PF01095.26`	Pectinesterase	319	617	2.7e-141	470.3

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
`Q9M3B0`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 34	62.393%	Swiss-Prot	strong database homology
`Q9FK05`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 61	60.862%	Swiss-Prot	strong database homology
`Q1JPL7`	Arabidopsis thaliana	Pectinesterase/pectinesterase inhibitor 18	42.414%	Swiss-Prot	moderate database homology

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