How can I find detailed promotor sequence of a gene?

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Raghad Mouhamad

TAIR: The most comprehensive resource for Arabidopsis, allowing access to upstream sequences of genes.

PlantRegMap: Provides predicted promoter regions and regulatory elements.

Phytozome: Offers genomic data for Arabidopsis and upstream sequence retrieval.

JASPAR: Helps identify transcription factor binding motifs in upstream sequences.

GEO: Search for experimental datasets involving promoter regions.

Genome Browsers: Use EnsemblPlants or IGV to visualize upstream regions.

Experimental Approaches: Amplify the upstream region and predict promoter elements if database information is unavailable.

Mohini Kajla

Try databases like TAIR, PlantProm DB, or AtRegNet for Arabidopsis native promoters. If not available, consider bioinformatics tools or recent literature for specific promoter sequences.

Darshi Hemani

Here are some databases for Arabidopsis promoter sequences:

AGRIS (Arabidopsis Gene Regulatory Information Server)Includes AtcisDB (promoter sequences and cis-regulatory elements) and AtTFDB (transcription factors and their targets). Website: AGRIS

Plant Promoter Database (ppdb)Offers detailed promoter sequences and transcription start site information. Website: ppdb

TAIR (The Arabidopsis Information Resource)Provides genetic and molecular data along with tools for sequence analysis. Website: TAIR

PlantCAREContains a database of plant cis-acting regulatory elements for promoter analysis. Website: PlantCARE

PlantPAN 4.0A promoter analysis tool with transcription factor binding site data. Website: PlantPAN

These resources should help you find native promoter sequences for your Gateway cloning.