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Gene : VIM3 A. thaliana

DB identifier  ? AT5G39550 Secondary Identifier  ? locus:2164835
Name  ? VARIANT IN METHYLATION 3 Brief Description  Zinc finger (C3HC4-type RING finger) family protein
TAIR Computational Description  Zinc finger (C3HC4-type RING finger) family protein;(source:Araport11)
TAIR Curator Summary  Encodes the VIM3/ORTH1 protein that is similar to VIM1. This protein has an N-terminal PHD domain and two RING domains surrounding an SRA domain. The protein has been shown to bind to methylated cytosines of CG, CNG and CNN motifs via its SRA domain but has a preference for the former. This protein functions as an E3 ubiquitin ligase in vitro with members of the UBC8 family E2s. Either of the two RING domains present in the protein can promote ubiquitylation in vitro, but, not the PHD domain. Over-expression of ORTH1/VIM3 leads to decreased levels of FWA methylation, increased levels of FWA transcripts, and delayed flowering. Cen180 repeats are also hypomethylated in plants overexpressing this protein.
TAIR Short Description  Zinc finger (C3HC4-type RING finger) family protein
TAIR Aliases  ORTH1, VIM3

3 Gene Rifs

1 Organism

19 Publications

0 Synonyms

Genomics

Genome feature

Region: gene ? Length: 3501  
Location: Chr5:15837178-15840678 reverse strand

Gene models - VIM3 AT5G39550

? Gene models

Transcripts: 1  Exons: 9  Introns: 8 

Overlapping Features

? Genome features that overlap coordinates of this Gene

10 Child Features

0 Cross References

1 Downstream Intergenic Region

0 Located Features

1 Upstream Intergenic Region

Proteins

Curated comments from UniProt

Type Comment Proteins
ORTH1_ARATH function E3 ubiquitin-protein ligase. Participates in CpG methylation-dependent transcriptional regulation and epigenetic transcriptional silencing. Mediates ubiquitination with the E2 ubiquitin-conjugating enzymes UBC11, UBC8 and UBC8 homologs (e.g. UBC10, UBC11, UBC28 and UBC29) but not with UBC27, UBC30, UBC32, UBC34 and UBC36. Promotes methylation-mediated gene silencing leading, for example, to early flowering. Can bind to CpG, CpNpG, and CpNpN DNA motifs, with a strong preference for methylated forms, and with highest affinity for CpG substrate.
ORTH1_ARATH pathway Protein modification; protein ubiquitination.
ORTH1_ARATH subcellular location Broadly distributed in the nucleus and enriched in the heterochromatic chromocenters.
ORTH1_ARATH tissue specificity Expressed in inflorescences and leaves.

1 Proteins

Function

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Expression

eFP Visualization

Data Source: BAR




Co-expression

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Data Source: ATTED-II
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Homology

Phytozome Homologs

Data Source: Phytozome


0 Homologues

 

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7 Data Sets