The fast DB user’s guide

 

 

 

 

 

Table of contents

 

Table of contents.. 2

THE FAST DB HOME PAGE.. 4

The fast DB search page. 6

Keyword search. 7

Blast search. 8

Multiple queries. 8

The fast DB advanced search page. 8

List of housekeeping genes. 9

List of the transcriptional coregulators from NURSA.. 9

List of the nuclear receptors from NURSA.. 9

Forum / Documentation. 9

Communications. 10

Data & statistics. 10

Links. 10

Contact us. 10

Number of visits and number of visitors. 10

Last update date. 10

MAIN PAGE.. 11

Navigation bar. 12

Graphical gene representation. 12

Link to the UCSC genome browser. 12

Number of exons. 13

Legend of the gene graphical representation. 14

Table of the transcription initiation & first exon(s) 15

Prediction of promoter 16

Transcription factor binding sites. 18

5’ UTR analysis. 18

Table of the transcription termination & last exon(s) 18

3’ UTR analysis on selected sequence. 19

3’ UTR analysis on all the gene sequence. 19

Table of alternative splicing. 19

Splicing factor binding site prediction. 20

Splice site strength scoring. 20

Links to alternative splicing databases. 20

Names / Symbols.. 21

PUBMED.. 23

TRANSCRIPTS VIEW... 25

Gene graphical representation. 26

Transcript graphical representation. 27

Genbank accession number 27

Pubmed link. 28

Tissue information. 28

ORFs prediction. 28

NMD prediction. 28

microRNA/transcript interaction site prediction. 28

Transcript sequences. 28

Functional protein domain analysis. 28

Transcript exon analysis. 29

MicroRNA/transcript interaction sites. 31

Frequency of inclusion/skipping of exons. 32

Multi-alignment of translated ORF sequences. 33

TISSUE-SPECIFICITY.. 35

Tissue distribution of all gene transcripts. 35

Tissue-specificity of alternative events. 36

IN SILICO PCR.. 38

Multi-alignment of transcript sequences. 38

In silico PCR.. 39

PROBE ALIGNMENT.. 41

PDF.. 44

SEQUENCES.. 46