LXL04_023963 | RubberDandelionOmics

Gene overview

LXL04_023963

Reference: OH-1004 Chr: Chr05 Coordinates: 75770327-75773947 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1824 bp · LXL04_023963|LXL04_023963|OH1004|cDNA

ATGGACTTTTATACATTTGATGGGAATGCTTCTGGTGACGACTATGAGGATATTGATTGGGATACAGATGATGAACTTGAAATCCAGAACATAACCCCTTCATCATGTGCAACTTTAACAACTCTGAATGCACAAACTATTAATGGGGAGGCGAGCTCATCAGCCGGCCCTTCAAATTCCGATTTGGTTCAGAAGTTTCTAGGAATGGGATTTTCCAAACAGTTGATTGCAAAAGCCATCAAAGAAAATGGGGAGTCCAA...

CDS

Download CDS FASTA

1824 bp · LXL04_023963|LXL04_023963|OH1004|CDS

ATGGACTTTTATACATTTGATGGGAATGCTTCTGGTGACGACTATGAGGATATTGATTGGGATACAGATGATGAACTTGAAATCCAGAACATAACCCCTTCATCATGTGCAACTTTAACAACTCTGAATGCACAAACTATTAATGGGGAGGCGAGCTCATCAGCCGGCCCTTCAAATTCCGATTTGGTTCAGAAGTTTCTAGGAATGGGATTTTCCAAACAGTTGATTGCAAAAGCCATCAAAGAAAATGGGGAGTCCAA...

Protein

Download Protein FASTA

607 aa · LXL04_023963|LXL04_023963|OH1004|PROTEIN

MDFYTFDGNASGDDYEDIDWDTDDELEIQNITPSSCATLTTLNAQTINGEASSSAGPSNSDLVQKFLGMGFSKQLIAKAIKENGESNTNSILESLLTYSVLEVEDSPDELNSCHLNSPQQPQQECVDNDQLSSDYNESLCDDLSESDSSWSGGSEVADVTSSLPKHEKALLSLAKMGYSIEEASAAMERCGPQASIVELTDFICAAQMAKMEDVFFEEEKPKLPLRLNGDFKKRKLYDLDIWKRKKRKGILTEEDDAIRL...

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_023963`
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_023963

Location Chr05:75770327-75773947 (-)

Description Similar to DRM2: DNA (cytosine-5)-methyltransferase DRM2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`UniProt: Q9M548`	Involved in de novo DNA methylation.	No verified direct reference in this release
`UniProt: Q9LXE5`	Involved in de novo DNA methylation.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0110800`	Involved in de novo DNA methylation.	No verified direct reference in this release
`Os12g0108900`	Involved in de novo DNA methylation.	No verified direct reference in this release
`Os05g0133900`	Involved in de novo DNA methylation.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_023963 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006346 DNA methylation-dependent constitutive heterochromatin formation Biological Process

GO:0032259 methylation Biological Process

GO:0040029 epigenetic regulation of gene expression Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0003886 DNA (cytosine-5-)-methyltransferase activity Molecular Function

GO:0008168 methyltransferase activity Molecular Function

GO:0009008 DNA-methyltransferase activity Molecular Function

KEGG gene cross-reference

ath:AT5G14620

ath:AT5G15380

dosa:Os03g0110800

dosa:Os05g0133900

dosa:Os12g0108900

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.

Nucleus0.840

Rank 1 · LXL04_023963 · OH-1004

Cytoplasm0.197

Rank 2 · LXL04_023963 · OH-1004

Cell membrane0.038

Rank 3 · LXL04_023963 · OH-1004

Mitochondrion0.031

Rank 4 · LXL04_023963 · OH-1004

Endoplasmic reticulum0.023

Rank 5 · LXL04_023963 · 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.

PF00145.24DNA_methylase485-600 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_023963	`PF00145.24`	DNA_methylase	485	600	2.4e-13	51.0

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9M548`	Arabidopsis thaliana	DNA (cytosine-5)-methyltransferase DRM2	55.226%	Swiss-Prot	strong database homology
`Q9LXE5`	Arabidopsis thaliana	DNA (cytosine-5)-methyltransferase DRM1	52.090%	Swiss-Prot	strong database homology
`Q10SU5`	Oryza sativa subsp. japonica	DNA (cytosine-5)-methyltransferase DRM2	52.589%	Swiss-Prot	strong database homology
`Q2QYR5`	Oryza sativa subsp. japonica	Probable inactive DNA (cytosine-5)-methyltransferase DRM1B	45.861%	Swiss-Prot	moderate database homology
`Q6AUQ7`	Oryza sativa subsp. japonica	Probable inactive DNA (cytosine-5)-methyltransferase DRM3	33.912%	Swiss-Prot	moderate database homology

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