LXL04_023697 | RubberDandelionOmics

Gene overview

LXL04_023697

Reference: OH-1004 Chr: Chr05 Coordinates: 63498592-63504705 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2097 bp · LXL04_023697|LXL04_023697|OH1004|cDNA

ATGGTGATTCACTCCGTCAAAGCCGAGAAAAATGAAGCCGCTGCTGAGAATGGACCTACAGTCCAACATTGCGGGGGAGTTGACACTCAAGTTACCCATACCTGCTCTCCGGTTAGGAGGATAAGTGCTCGTATTCAGAAGAGCGAGAAAGAAAAAGCTGCTATTCGACTTCGTCAACAGGAAGAGGAGTCTATCACTAAGGTAGAGAAACCGGCGAAGAAGCAGCGATTAAACTACAACAAGAAAAAGGGTATATCGGA...

CDS

Download CDS FASTA

2097 bp · LXL04_023697|LXL04_023697|OH1004|CDS

ATGGTGATTCACTCCGTCAAAGCCGAGAAAAATGAAGCCGCTGCTGAGAATGGACCTACAGTCCAACATTGCGGGGGAGTTGACACTCAAGTTACCCATACCTGCTCTCCGGTTAGGAGGATAAGTGCTCGTATTCAGAAGAGCGAGAAAGAAAAAGCTGCTATTCGACTTCGTCAACAGGAAGAGGAGTCTATCACTAAGGTAGAGAAACCGGCGAAGAAGCAGCGATTAAACTACAACAAGAAAAAGGGTATATCGGA...

Protein

Download Protein FASTA

698 aa · LXL04_023697|LXL04_023697|OH1004|PROTEIN

MVIHSVKAEKNEAAAENGPTVQHCGGVDTQVTHTCSPVRRISARIQKSEKEKAAIRLRQQEEESITKVEKPAKKQRLNYNKKKGISDNVRTQVVHDEGKLTVVASNSEAGTEHKEKLKDEQTGEEIENGSTCKGQIGEKSVYAMVTDTIRAFNKHYLHFVQEEETRCKKVEADQKKTKKPKSKNQDAVEEKGKAKRPDLKALTKMINLNTTLIPPTRIGSVPGVDVGHQFFSRCEMVTVGFHNHWLCGIDYIGIGRKKDY...

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_023697`
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_023697

Location Chr05:63498592-63504705 (+)

Description Similar to SUVH4: Histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g13960`	Histone methyltransferase.	H3 lysine 9 methylation is maintained on a transcribed inverted repeat by combined action of SUVH6 and SUVH4 methyltransferases.2005 · DOI: 10.1128/mcb.25.23.10507-10515.2005
`At2g22740`	Histone methyltransferase.	Dimethylation of histone H3 lysine 9 is a critical mark for DNA methylation and gene silencing in Arabidopsis thaliana.2004 · DOI: 10.1007/s00412-004-0275-7 H3 lysine 9 methylation is maintained on a transcribed inverted repeat by combined action of SUVH6 and SUVH4 methyltransferases.2005 · DOI: 10.1128/mcb.25.23.10507-10515.2005
`At2g35160`	Histone methyltransferase.	No verified direct reference in this release
`At1g73100`	Histone methyltransferase.	No verified direct reference in this release
`At5g04940`	Histone methyltransferase.	Pivotal role of AtSUVH2 in heterochromatic histone methylation and gene silencing in Arabidopsis.2005 · DOI: 10.1038/sj.emboj.7600604

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_023697 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0018022 peptidyl-lysine methylation Biological Process

GO:0031048 regulatory ncRNA-mediated heterochromatin formation Biological Process

GO:0032259 methylation Biological Process

GO:0040029 epigenetic regulation of gene expression Biological Process

GO:0044027 negative regulation of gene expression via chromosomal CpG island methylation Biological Process

GO:0000123 histone acetyltransferase complex Cellular Component

GO:0000775 chromosome, centromeric region Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005694 chromosome Cellular Component

GO:0001228 DNA-binding transcription activator activity, RNA polymerase II-specific Molecular Function

GO:0003690 double-stranded DNA binding Molecular Function

GO:0008168 methyltransferase activity Molecular Function

KEGG gene cross-reference

ath:AT1G73100

ath:AT2G22740

ath:AT2G35160

ath:AT5G04940

ath:AT5G13960

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.

Nucleus0.944

Rank 1 · LXL04_023697 · OH-1004

Cytoplasm0.089

Rank 2 · LXL04_023697 · OH-1004

Cell membrane0.030

Rank 3 · LXL04_023697 · OH-1004

Endoplasmic reticulum0.014

Rank 4 · LXL04_023697 · OH-1004

Mitochondrion0.014

Rank 5 · LXL04_023697 · 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.

PF02182.24SAD_SRA217-376 aa

PF05033.23Pre-SET409-513 aa

PF00856.34SET532-668 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_023697	`PF02182.24`	SAD_SRA	217	376	7.8e-49	166.0
LXL04_023697	`PF05033.23`	Pre-SET	409	513	6.6e-17	62.7
LXL04_023697	`PF00856.34`	SET	532	668	1.4e-18	68.0

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q8GZB6`	Arabidopsis thaliana	Histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH4	54.932%	Swiss-Prot	strong database homology
`Q8VZ17`	Arabidopsis thaliana	Histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH6	38.121%	Swiss-Prot	moderate database homology
`O82175`	Arabidopsis thaliana	Histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH5	37.722%	Swiss-Prot	moderate database homology
`Q9C5P4`	Arabidopsis thaliana	Histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH3	38.351%	Swiss-Prot	moderate database homology
`Q9FF80`	Arabidopsis thaliana	Histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH1	37.087%	Swiss-Prot	moderate database homology

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