Manual
Information regarding data stored in a particular release of abYsis.
Sequences Analysed
Germline Collection
Key Annotation
Information about the definitions used in abYsis.
Numbering Schemes and Regions
Canonical Classes
Post-translational Modifications
The search pages give you access to information contained in the abYsis database.
Basic / Structure / Sequence
The Basic, Structure and Sequence pages are in fact a single search page - the three different entry points simply display or hide different sets of options by default. There are many options.Query options
Once a search is performed, you are switched to the results tab and a download tab is also displayed where you can download the results:
Results tab
Download tab
Clicking on an accession code in the results table will take you to the full 'key annotation' entry for that accession.
Distributions
Amino acid frequencies
Region length distributions
These pages allow you to analyze your own sequences
Key Annotation
This page allows you to enter you protein and/or DNA sequence data. Submitting multiple sequences in FASTA format will give you a multi-sequence alignment:
Annotate your sequence
Alignment page
Submitting your sequence will take you to the 'key annotation' for your sequence.
Blast searches
You can perform a BLAST search of your sequence against data in the database.
BLAST your sequence
The BLAST program
BLAST options
The BLAST amino acid similarty matrices
DNA Alignment
The DNA Alignment page allows you to perform alignment between a protein and DNA sequence
Protein/DNA alignment
Database Upload
You can upload your own sequences onto the abYsis database
Database Upload
The key annotation page displays the full analysis for a given sequence.
You reach this page either by performing a search and clicking on an accession code, or by providing your own sequence for analysis.
It contains 6 tabs:
Summary
Canonical classes
Structure
Germline
Humanize
Library Deign