What is a transcription factor motif?

In Silico Detection of Transcription Factor Binding Sites. We define TF binding motifs as sets of DNA sequences having high affinity for binding TFs. Each occurrence of a sequence from the binding motif in a genomic region is referred to as a motif instance.

Do yeast have transcription factors?

The yeast Saccharomyces cerevisiae is a prevalent system for the analysis of transcriptional networks. As a result, multiple DNA-binding sequence specificities (motifs) have been derived for most yeast transcription factors (TFs).

How many transcription factors are present in yeast?

DNA-binding domains of five yeast transcription factors.

Which template used in yeast transcription?

The WT template contains the yeast ribosomal DNA (rDNA) promoter region from −200 to +41 relative to the site of transcription initiation that is flanked by vector DNA. These sequences include both the upstream and core promoter elements.

What are the two main categories of motif discovery algorithms?

There are two principal types of motif discovery algorithms; i.e. enumeration approach and probabilistic technique.

Is yeast prokaryotic or eukaryotic?

Yeast is one of the simplest eukaryotic organisms but many essential cellular processes are the same in yeast and humans. It is therefore an important organism to study to understand basic molecular processes in humans.

How does eukaryotic transcription differ from prokaryotic transcription?

Eukaryotes have three types of RNA polymerases, I, II, and III, and prokaryotes only have one type. Another main difference between the two is that transcription and translation occurs simultaneously in prokaryotes and in eukaryotes the RNA is first transcribed in the nucleus and then translated in the cytoplasm.

When the DNA folds back with more TFs It then activates the?

Allow RNA polymerase to attach & some TFs will actually hold RNA polymerase in place. When the DNA folds back, with more TFs, it then activates the what? RNA polymerase.

Where does transcription occur in yeast?

The location of the transcriptional start site (TSS) for the majority of budding yeast genes is found ∼12–13 nucleotides inside the border of the +1 nucleosome.

Does a gene always encode a protein?

Although the majority of genes encode proteins, some encode tRNAs, rRNAs, and other types of RNA. Most bacterial genes have no introns, whereas most genes of multicellular organisms do. The introns in human genes encoding average-size proteins are often much longer than the exons.

How is YEASTRACT used to identify transcription regulators?

YEASTRACT allows the identification of documented or potential transcription regulators of a given gene and of documented or potential regulons for each transcription factor. It also renders possible the comparison between DNA motifs and the transcription factor binding sites described in the literature.

How many YEASTRACT genes are there in cerevisiae?

YEASTRACT ( Yea st S earch for T ranscriptional R egulators A nd C onsensus T racking) is a curated repository of approximately 175.000 regulatory associations between transcription factors (TF) and target genes in Saccharomyces cerevisiae, based on more than 1580 bibliographic references.

What is the purpose of YEASTRACT in biology?

YEASTRACT provides a set of queries to search and retrieve important biological information from the gathered data and to predict transcription regulation networks in yeast from data emerging from gene-by-gene analysis or global approaches. – New curated regulatory information!

Where can I find GO terms for yeast genes?

For each gene the associated Gene Ontology (GO) terms and their hierarchy in GO was obtained from the GO consortium as per the OBO flat file from Mar 19, 2019. Currently, YEASTRACT maintains a total of 69.043 terms from GO. The nucleotide sequences of the promoter and coding regions for Yeast genes were obtained from SGD.