The Molecular Biology Notebook Online
A Beginners' Guide to Molecular Biology

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Nucleotide

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The combination of a base, a pentose, and a phosphate in the structure of nucleic acids. The basic building block of DNA and RNA

View the molecule (AMP) in Rasmol
View the molecule (GMP) in Rasmol
View the molecule (TMP) in Rasmol
View the molecule (CMP) in Rasmol

View Dr Chromo's lecture on 'RNA'

View Dr Chromo's lecture on 'DNA'

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Related Links

This is a search for nucleotide in our database

• 2Can ebi tutorials: Learn how to use the tools at the EBI to find out more about your nucleotide or protein sequences. You will be guided through a series of exercises using sample fragments of sequence. To gain more information about these sequences, you will use a variety of tools to compare the sequences to databases and analyse them.
• BOND: Basic OligoNucleotide Design: We provide an improved solution to the important problem of oligonucleotide design, including a thorough evaluation of oligo design programs. We hope BOND will become a useful tool for researchers in biological and medical sciences by making the microarray procedures faster and more accurate
• Central dogma of molecular biology: The dogma is a framework for understanding the transfer of sequenceSequence In mathematics, a sequence is an ordered list of objects . Like a Set , it contains Element , and the number of terms is called the length of the sequence.... informationInformation Information as a Conveyed concept has a diversity of meanings, from everyday usage to technical settings. Generally speaking, the concept of information is closely related to notions of constraint, communication, control system, data, form, instruction, knowledge, Meaning , stimulation, pattern, perception, and knowledge representation.... between sequential information-carrying biopolymerBiopolymer Biopolymers are a class of polymers produced by living organisms.Starch, proteins and peptides,and DNA and RNA are all examples of biopolymers, in which the monomeric units, respectively, are sugars, amino acids, and nucleotides.... s, in the most common or general case, in living organismOrganism In biology, an organism is any life thing . In at least some form, all organisms are capable of response to stimulus , reproduction, growth and developmental biology, and maintenance of homeostasis as a stable whole.... s.
• Computational Genomic Group (CGG): Computational approaches for analysis of nucleotide and protein sequences and structures as well as understanding structural and functional organization of genetic signals encoded in genome sequences.
• DNA ligation protocol: DNA ligation is the process of joining together two DNA molecule ends (either from the same or different molecules). Specifically, it involves creating a phosphodiester bond bond between the 3\' hydroxyl of one nucleotide and the 5\' phosphate of another. This reaction is usually catalyzed by a DNA ligase enzyme. This enzyme will ligate DNA fragments having blunt or overhanging, complementary, \'sticky\' ends. Typically, it is easier to ligate molecules with complementary sticky ends than blunt ends. T4 DNA ligase is the most commonly used DNA ligase for molecular biology techniques and can ligate \'sticky\' or blunt ends.
• DNA-Chip Analyzer (dChip): Model-based analysis of oligonucleotide arrays
• Muscle Online Documentation: MUSCLE is a program for creating multiple alignments of amino acid or nucleotide sequences. A range of options is provided that give you the choice of optimizing accuracy, speed, or some compromise between the two. Default parameters are those that give the best average accuracy in our tests. Using versions current at the time of writing, my tests show that MUSCLE can achieve both better average accuracy and better speed than CLUSTALW or T‑Coffee, depending on the chosen options.
• OligoFaktory: OligoFaktory is a web portal that gives access to a series of online applications for the design of oligonucleotides. It is aimed at assisting researchers for a painless, rapid, automated, and reliable design. These applications integrate an innovative numerical approach to the minimization of undesirable interactions such as hairpins, homodimers, and heterodimers. Furthermore, each application is dedicated to a specific objective and provides great control over specific parameters and constraints.
• RESearch - a new computer program for DNA analysis: The main design philosophy behind the development of RESearch was to make the basic DNA analysis tools readily available on IBM PCs, and to make them easy to use. RESearch enables molecular biologists to analyse a GCG formatted sequence in several ways including searching for short nucleotide sequences and restriction enzyme sites, translating open reading frames and searching for short amino acid sequences.
• SIGFIND - Signal Peptide Prediction Server (Human): This software (SIGFIND) predicts signal peptides at the start of protein sequences or searches open reading frames with a potential signal peptide coded in nucleotide sequences. The sig.pep. score along the sequence indicates the location and size of the signal-peptide. This score ranges from 0 (=no signal peptide) to 9 (=max. score for presence of a signal peptide). The range where this score drops from high to low indicates the approximate position of the cleavage site.
• TmPrime: TmPrime is a computer program to design oligonucleotide sets for LCR- and PCR-based gene synthesis to construct man-made DNA sequences by assembling pools of oligonucleotides. The program divides the long input DNA sequence based on the user specified melting temperatures and assembly conditions, and dynamically optimizes the length of oligonucleotides to achieve homologous melting temperatures. The output reports the melting temperatures, oligonucleotide sequences, and potential formation of secondary structures in a PDF file which will be sent to you via email.
• Tutorial for Clustal X and TreeView: The Clustal programs are the choice for the novice to make a decent phylogenetic analysis of obtained nucleotide or amino acid sequences. Clustal can align the sequences and produce output files for drawing trees. The tree viewing feature is however not included in the standard Clustal packages.
• WebCutter: Webcutter is an on-line tool for restriction mapping nucleotide sequences. Now the new version Cutter"

nucleotide on Wikipedia

nucleotide at Answers. com

New Links

-Running DeCypher from Geneious
There is a plugin to connect Geneious and DeCypher together. This page explains how to set it up, an...
-DeCypher on G1
This is the first instance of DeCypher on a G1 card. The oldest. ...
-Decypher on J1
The latest instance (testing). ...
-Decypher on H1
Intermediate DeCypher instance: requires username and login....
-Laboratory Information Management Systems for DNA Barcoding
Here, we demonstrate an example workflow of a specimen’s entry into the LIMS database to the publis...

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Web technical : Nathalie Castells-Brooke

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