SCPD The Promoter Database of Saccharomyces cerevisiae

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• Genes: Explore the promoter regions of ~6000 genes and ORFs in yeast genome
• Provide information on genes with mapped regulatory regions
• Annotate putative regulatory sites of all genes and ORFs
• Locate intergenic regions
• Retrieve sequence of the promoter region

• Regulatory elements and transcriptional factors
• Provide information on transcriptionally related genes
• Matrix and Consensus sequence
• Correlation between elements
• Binding affinity and expression
• Genomewise distribution

• Analysis tools
• Retrieve promoter sequences
• Find ORFs from gene names
• Search existing motifs
• Search for predefined putative regulatory elements using matrix and consensus
• Search for user-defined consensus sequences
• Search for user-defined matrix
• Group genes according to function categories
• Repetitive sequence analyzer (Java)
• Motif distribution (Java)
• K-tuple relative information
• Palindromic sequences
• Multisequence alignment by GibbsDNA

• Submit records to SCPD
• Submit a gene record
• Submit a consensus record
• Submit a matrix record

• Miscellaneous features
• Documentation
• Collection of binding affinity and expression data

• Links

o TRANSFAC	o TFD
o TRRD	o SGD
o MIPS	o GENBANK
o IMD	o Stanford DNA Microarray Database
o YPD

• Licensing
• Licensing information

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©1998 Cold Spring Harbor Laboratory mzhang@cshl.edu