LXL04_004200 | RubberDandelionOmics

Gene overview

LXL04_004200

Reference: OH-1004 Chr: Chr01 Coordinates: 128976586-128979405 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1909 bp · LXL04_004200|LXL04_004200|OH1004|cDNA

ATGCCAAACGGACAAACATACAGCTACTTCTTCTTCACCACCCAACAACAGATCTGAGTCTCTGACACACACTAGTACACCATCATCTTCACACACTAAAATGCCTAAACCGTCGCCATCGTCGTCGTCTCCGCCATCTCAAACCCCCCTGAGAAACCCATTAATCAGACTCTTCTTCGTCTTCTTTGTCTGTTCAACTGCTTACATTCTTGGCTCATTCAGATCCAACATTAACACCTTATATAAACCCACAACTAAAA...

CDS

Download CDS FASTA

1848 bp · LXL04_004200|LXL04_004200|OH1004|CDS

CTGACACACACTAGTACACCATCATCTTCACACACTAAAATGCCTAAACCGTCGCCATCGTCGTCGTCTCCGCCATCTCAAACCCCCCTGAGAAACCCATTAATCAGACTCTTCTTCGTCTTCTTTGTCTGTTCAACTGCTTACATTCTTGGCTCATTCAGATCCAACATTAACACCTTATATAAACCCACAACTAAAAATCAACAAAACTGCTTAAATCCCGTCACCATTTTCACCAACTTTTCACACCAAAACACTCC...

Protein

Download Protein FASTA

615 aa · LXL04_004200|LXL04_004200|OH1004|PROTEIN

MTHTSTPSSSHTKMPKPSPSSSSPPSQTPLRNPLIRLFFVFFVCSTAYILGSFRSNINTLYKPTTKNQQNCLNPVTIFTNFSHQNTPPPLDFEAHNTLPPPPLNPPKKFKICPSNFTHYCPCQDPQRERLFKVERMLHRERHCPATAGEILRCLVPEPVGYKKPFPWPKSRAQAWFSNVPFKTLTESKKQQNWVRLVGDRLVFPGGGTSFQKGVKGYIDQLKKMVPLESGAIRTVLDTGCGVASFGDSLMDYNIITMSIA...

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_004200`
TK1151 ID	TkA01G185460
OH-1004 ID	LXL04_004200
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	98.000
Protein coverage (%)	TK1151 97.003 / 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_004200

Location Chr01:128976586-128979405 (-)

Description Similar to At2g43200: Probable methyltransferase PMT19

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g43200`	Probable methyltransferase PMT19.	No verified direct reference in this release
`At2g45750`	Probable methyltransferase PMT16.	No verified direct reference in this release
`At4g00750`	Probable methyltransferase PMT15.	No verified direct reference in this release
`At1g33170`	Probable methyltransferase PMT18.	No verified direct reference in this release
`At4g10440`	Probable methyltransferase PMT17.	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_004200 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0032259 methylation Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005768 endosome Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0005829 cytosol Cellular Component

GO:0008168 methyltransferase activity Molecular Function

KEGG gene cross-reference

ath:AT1G33170

ath:AT2G43200

ath:AT2G45750

ath:AT4G00750

ath:AT4G10440

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.

Golgi apparatus0.657

Rank 1 · LXL04_004200 · OH-1004

Extracellular0.095

Rank 2 · LXL04_004200 · OH-1004

Cell membrane0.088

Rank 3 · LXL04_004200 · OH-1004

Endoplasmic reticulum0.072

Rank 4 · LXL04_004200 · OH-1004

Nucleus0.038

Rank 5 · LXL04_004200 · 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.

PF03141.23Methyltransf_29119-612 aa

PF13649.13Methyltransf_25235-327 aa

PF08241.19Methyltransf_11236-330 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_004200	`PF03141.23`	Methyltransf_29	119	612	1.1e-203	678.1
LXL04_004200	`PF13649.13`	Methyltransf_25	235	327	2.5e-09	38.4
LXL04_004200	`PF08241.19`	Methyltransf_11	236	330	6.5e-11	43.4

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
`Q9ZW75`	Arabidopsis thaliana	Probable methyltransferase PMT19	60.348%	Swiss-Prot	strong database homology
`O80844`	Arabidopsis thaliana	Probable methyltransferase PMT16	49.088%	Swiss-Prot	moderate database homology
`Q9ZPH9`	Arabidopsis thaliana	Probable methyltransferase PMT15	47.981%	Swiss-Prot	moderate database homology
`Q9C884`	Arabidopsis thaliana	Probable methyltransferase PMT18	47.488%	Swiss-Prot	moderate database homology
`Q9SZX8`	Arabidopsis thaliana	Probable methyltransferase PMT17	48.259%	Swiss-Prot	moderate database homology

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