Gene Details:

• Gene ID: AT3G42670
• Gene Symbol: CHR38, CLSY, CLSY1
• Gene Name: chromatin remodeling 38, CLASSY1, CLASSY 1
• Description: chromatin remodeling 38;(source:Araport11)
• TAIR Accession: locus:2096499
• Genome: Araport11_genome_release
• Species: Arabidopsis thaliana

Transcripts:

• AT3G42670.1     AT3G42670.4     AT3G42670.3     AT3G42670.2

Plant Ontology Annotations:

• PO:0000282  — trichome — tricoma (Spanish, exact), 毛茸、糸状体、毛 (Japanese, exact), seta (related), setae (related), capilli (narrow), capillus (narrow), cilia (narrow), cilium (narrow), glochid (narrow), glochidia (narrow), glochidium (narrow), hair (narrow), lepides (narrow), lepis (narrow), non-secretory trichome (narrow), scale (narrow), squama (narrow), squamae (narrow), squamella (narrow), squamellae (narrow), squamule (narrow), barb trichome (broad), bristle (broad)
• PO:0000037  — shoot axis apex — ápice del epiblasto (epiblastema) (Spanish, exact), シュート頂、茎頂 (Japanese, exact)
• PO:0009006  — shoot system — sistema de epiblasto (epiblastema) (Spanish, exact), シュート系、苗条系 (Japanese, exact), Poaceae crown (related), shoot (related), thalli (related), thallus (related), tree crown (narrow)
• PO:0009009  — plant embryo — embrión (Spanish, exact), 植物胚 (Japanese, exact), germ (related), embryo (broad)
• PO:0009025  — vascular leaf — foliage leaf (exact), hoja vascular (Spanish, exact), leaf, vascular (exact), vascular leaves (exact, plural), 維管束のある葉, または維管束植物の葉 (Japanese, exact), crozier (related), macrophyll (related), megaphyll (related), ascidia (narrow), ascidium (narrow), fiddlehead (narrow), frond (narrow), needle-like leaf (narrow), pitcher (narrow), pitcher blade (narrow), pitcher-blade (narrow), scale-like leaf (narrow), sterile frond (narrow), trophophyll (narrow)
• PO:0009031  — sepal — sépalo (Spanish, exact), がく片 (Japanese, exact)
• PO:0009046  — flower — flor (Spanish, exact), 花 (Japanese, exact), floret (related), Asteraceae floret (narrow), basal flower (narrow), double flower (narrow), hermaphrodite flower (narrow), monoclinous flower (narrow), perfect flower (narrow)
• PO:0009052  — inflorescence flower pedicel — 小花柄 (Japanese, related), pedicelo (Spanish, broad)
• PO:0020100  — hypocotyl — hipocótile (Spanish, exact), 胚軸 (Japanese, exact)
• PO:0025022  — collective leaf structure — estructura colectiva de hoja (Spanish, exact), leaf series (exact), 葉が集まった構造 (Japanese, exact), leaf whorl (narrow), rosette (narrow), cycle (broad), verticil (broad)

Gene Ontology:

• GO:1900370  — acts upstream of or within — positive regulation of post-transcriptional gene silencing by RNA
• GO:0005634  — located in — nucleus
• GO:0031047  — acts upstream of or within — regulatory ncRNA-mediated gene silencing
• GO:0005730  — located in — nucleolus

Germplasm Phenotype:

• clsy1-3  — Reduced silencing.
• clsy1-4  — Reduced spreading of silencing, loss of endogenous 24 nt siRNAs.
• clsy1-7  — reduced 24nt-siRNA levels
• clsy1-7 clsy2-2  — synergistic relationship resulting in stronger reductions in 24nt-siRNA levels, effects on differentially methylated regions where methylation level reductions were observed in non-CG contexts in a genotype-specific manner.
• clsy1-7 clsy2-2 clsy3-1 clsy4-1  — greater than 98% of all pol-iv-dependent 24nt-siRNA clusters were reduced, effects on differentially methylated regions where methylation level reductions were observed in non-CG contexts in a genotype-specific manner.

Function-related keywords:

• trichome ,  shoot axis apex ,  shoot system ,  plant embryo ,  vascular leaf ,  sepal ,  flower ,  inflorescence flower pedicel ,  hypocotyl ,  collective leaf structure

Literature:

• Cell-specific protein profiling in Arabidopsis thaliana trichomes: identification of trichome-located proteins involved in sulfur metabolism and detoxification.   DOI:  10.1016/j.phytochem.2004.03.026 ;  PMID:  15276459
• Prediction and identification of Arabidopsis thaliana microRNAs and their mRNA targets.   DOI:  10.1186/gb-2004-5-9-r65 ;  PMID:  15345049
• Involvement of putative SNF2 chromatin remodeling protein DRD1 in RNA-directed DNA methylation.   DOI:  10.1016/j.cub.2004.04.037 ;  PMID:  15120073
• A transcriptome-based characterization of habituation in plant tissue culture.   DOI:  10.1104/pp.105.076059 ;  PMID:  16489130
• Dynamic evolution at pericentromeres.   DOI:  10.1101/gr.4399206 ;  PMID:  16461884
• An SNF2 protein associated with nuclear RNA silencing and the spread of a silencing signal between cells in Arabidopsis.   DOI:  10.1105/tpc.107.051540 ;  PMID:  17526749
• Identification of genes required for de novo DNA methylation in Arabidopsis.   DOI:  10.4161/epi.6.3.14242 ;  PMID:  21150311
• SHH1, a homeodomain protein required for DNA methylation, as well as RDR2, RDM4, and chromatin remodeling factors, associate with RNA polymerase IV.   DOI:  10.1371/journal.pgen.1002195 ;  PMID:  21811420
• Comprehensive analysis of silencing mutants reveals complex regulation of the Arabidopsis methylome.   DOI:  10.1016/j.cell.2012.10.054 ;  PMID:  23313553
• DTF1 is a core component of RNA-directed DNA methylation and may assist in the recruitment of Pol IV.   DOI:  10.1073/pnas.1300585110 ;  PMID:  23637343
• Locus-specific control of the de novo DNA methylation pathway in Arabidopsis by the CLASSY family.   DOI:  10.1038/s41588-018-0115-y ;  PMID:  29736015
• Post-transcriptional gene silencing triggers dispensable DNA methylation in gene body in Arabidopsis.   DOI:  10.1093/nar/gkz636 ;  PMID:  31372641
• The CLASSY family controls tissue-specific DNA methylation patterns in Arabidopsis.   DOI:  10.1038/s41467-021-27690-x ;  PMID:  35017514
• Advances of RNA polymerase IV in controlling DNA methylation and development in plants.   DOI:  10.16288/j.yczz.22-063 ;  PMID:  35858769
• Cell-specific protein profiling in Arabidopsis thaliana trichomes: identification of trichome-located proteins involved in sulfur metabolism and detoxification.   DOI:  10.1016/j.phytochem.2004.03.026 ;  PMID:  15276459

Sequences: