PlantCADB
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Introduction:

You can submit a TF name for query after selecting species, then PlantCADB can provide you the Sample ID and sequence that binds to the TF. PlantCADB used two methods to identify transcription factor binding sites, one is footprint analysis, and the other is motif scanning analysis. Among them, we only analyze the footprints of ATAC-seq and DNase-seq data. As some species currently do not have motif or gene annotation files, we will supplement the information of the database timely in the future.

   

Strategies:

Overlapping: The genes that overlap with the accessible regions of chromatin.
Proximal: The 1kb upstream and downstream region of TSS is defined as the TSS range. If this region overlaps with a certain chromatin accessible region, then the corresponding genes are considered to be the proximal genes of the chromatin accessible region.
Closet: The gene closest to the center of the accessible region of chromatin.

Search ACR by gene

Introduction:

You can submit a gene ID for query after selecting species and strategies, then PlantCADB can provide you a series of information such as region ID.


Introduction:

You can submit a region for query after selecting 'Species' and 'Sample ID', then PlantCADB can provide you a series of regions within it. Regions information include species, sample ID, chromosome, start position and end position.