Retrive DNA or Protein Sequence Data from Molecular Databases |
Search Genbank For Nucleotide Sequences with Entrez Search Engine |
Enter Gene Name, Keywords, Accession Numbers, Authors, etc. to Find DNA Sequences in Genbank |
| Search Genbank For Nucleotide and Protein Sequences with Taxonomy Search Engine |
Find DNA or Protein Sequences for Specific Taxonomic Groups By Entering the Name of the Taxonomic Group (e.g., Homo) |
Search Genbank For Protein Sequences with Entrez Search Engine |
Enter Gene Name, Keywords, Accession Numbers, Authors, etc. to Find Protein Sequences in Genbank |
| Search Genbank For Matches to A Specific Nucleotide or Amino Acid Sequence Using a BLAST Search Engine |
Enter A DNA Sequence (Unknown?) to Look for Matches in Genbank |
| Search Yeast Genome Site |
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Primer Design |
| Primer3 |
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| PrimerQuest |
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Multiple Sequence Alignments |
| BCM Search Launcher: Multiple Sequence Alignments |
Baylor College of Medicine Program that lines up sequences based on areas of similarity - You need to have a file that contains all of the sequences |
Restriction Enzyme Analysis |
| Restriction Enzyme Analysis Program |
Program that determines where restriction enzymes cut DNA sequences - You cut and paste your sequence into a box, select all or only certain enzymes |
| Double Digest Finder |
Program that determines the protocol for using two restriction enzymes to cut one piece of DNA. |
Translate A Nucleotide Sequence |
| Submit a Nucleotide Sequence to Determine Open Reading Frames and Obtain Translation |
Cut and Paste a nucleotide sequence into a box and submit the sequence. The program translates the sequence for all 6 possible reading frames (3 the way the sequence was entered and 3 for the reverse compliment) - You can see a translation of the sequence by clicking on the open reading frame you want. To obtain a FASTA format of the Amino Acid Sequence click the accept button and then view the sequence in a FASTA protein format. |
Analyze the Structure of a Protein |
| Protein Statistics (PEPSTATS) |
Determines the Amino Acid Composition, Molecular Weight, Charge, Isoelectric Point, Etc. |
| Predator |
Predicts Secondary Structure of Proteins |
| Pepcoil |
Predicts Coiled Coil Regions in Proteins |
| Oligonucleotide Primer Analysis |
| IDT Oligo Analyzer 3.0 |
Determines many parameters including melting temp |
| Northwestern Oligonucleotide Calculator |
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