TRANSFAC® Release 7.0 - Documentation
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TRANSFAC tables and their relations
The present release comprises the following ASCII flat files or tables:
| SITE |
7915 entries |
| GENE |
2397 entries |
(1504 entries with SITE links) |
| FACTOR |
6133 entries |
| CELL |
1307 entries |
| CLASS |
50 entries |
| MATRIX |
398 entries |
The contents of each table will be detailed below.
SITE gives information on (regulatory) transcription factor binding sites within eukaryotic genes. GENE gives a short explanation of the gene where a site (or group of sites) belongs to. FACTOR describes the proteins binding to these sites. CELL gives brief information about
the cellular source of proteins that have been shown to interact with the sites. CLASS contains
some background information about the transcription factor classes, while the MATRIX table
gives nucleotide distribution matrices for the binding sites of transcription factors.
The ASCII flat file table SITE comprises all information which in the relational model
is contained in distinct but connected records (SEQUENCES, METHOD, ENTRY and REFERENCE).
Similarly, FACTOR, CLASS and MATRIX contain the full reference data.
However, the factors binding to a certain site are indicated within the SITE entry by name and factor accession number, and vice versa the sites a certain factor binds to
are likewise listed in the FACTOR records.
