SDG2 SET domain protein 2 [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: SDG2
Official Full Name: SET domain protein 2
Primary source: TAIR:AT4G15180
Locus tag: AT4G15180
See related: Araport:AT4G15180
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: ATXR3; DL3635W; FCAALL.214; SET domain protein 2
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Genomic context

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See SDG2 in Genome Data Viewer

Location:: chromosome: 4

Exon count:: 21

Sequence:: Chromosome: 4; NC_003075.7 (8651406..8662587)

Chromosome 4 - NC_003075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003075.7

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Circadian clock genes promote diurnal regulation of SDG2 and JMJ14 expression, which in turn regulate rhythmic histone modification dynamics for the clock and its output genes.
Title: Diurnal regulation of SDG2 and JMJ14 by circadian clock oscillators orchestrates histone modification rhythms in Arabidopsis.
SDG2-mediated Histone H3 Lys 4 trimethylation is an essential epigenetic mark of the gametophyte chromatin landscape.
Title: SDG2-Mediated H3K4me3 Is Crucial for Chromatin Condensation and Mitotic Division during Male Gametogenesis in Arabidopsis.
SDG2-mediated H3K4 methylation is required for proper Arabidopsis root growth and development.
Title: SDG2-mediated H3K4 methylation is required for proper Arabidopsis root growth and development.
The novel-class H3K4 methyltransferase, ATXR3, is a transcriptional activator that plays a role in the FLC activation and establishing the winter-annual habit.
Title: Arabidopsis trithorax-related3/SET domain GROUP2 is required for the winter-annual habit of Arabidopsis thaliana.
Anther and pollen development is impaired in sdg2-1 mutant plants. SDG2 activates gene transcription through H3K4 trimethylation.
Title: Arabidopsis SET DOMAIN GROUP2 is required for H3K4 trimethylation and is crucial for both sporophyte and gametophyte development.
SDG2 is a robust and specific H3K4 methyltransferase in vitro, and the loss of SDG2 leads to a drastic decrease in H3K4me3 in vivo.
Title: SET DOMAIN GROUP2 is the major histone H3 lysine [corrected] 4 trimethyltransferase in Arabidopsis.

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General gene information

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NM_117606.5

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables histone H3K4 methyltransferase activity	IDA Inferred from Direct Assay more info	PubMed
enables histone H3K4 methyltransferase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables histone H3K4 trimethyltransferase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within carpel development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in circadian rhythm	IEP Inferred from Expression Pattern more info	PubMed
involved_in circadian rhythm	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within_negative_effect epigenetic regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within megasporocyte differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within post-embryonic development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within stamen development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within vegetative to reproductive phase transition of meristem	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	ISM Inferred from Sequence Model more info

General protein information

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Preferred Names: SET domain protein 2

NP_193253.4

SET domain protein 2 (SDG2); EXPRESSED IN: male gametophyte, cultured cell; EXPRESSED DURING: M germinated pollen stage; CONTAINS InterPro DOMAIN/s: SET domain (InterPro:IPR001214); BEST Arabidopsis thaliana protein match is: histone methyltransferases(H3-K4 specific);histone methyltransferases(H3-K36 specific) (TAIR:AT1G77300.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003075.7 Reference assembly

Range

8651406..8662587

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_117606.5 → NP_193253.4 SET domain protein 2 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_193253.4

Status: REVIEWED

UniProtKB/Swiss-Prot

O23372, Q0WVL9

UniProtKB/TrEMBL

A0A654FPJ1

Conserved Domains (2) summary

smart00317
Location:1775 → 1906

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

pfam14237
Location:983 → 1027

DUF4339; Domain of unknown function (DUF4339)