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Table 2 A comparison of different alternative splicing databases and tools

From: ProSplicer: a database of putative alternative splicing information derived from protein, mRNA and expressed sequence tag sequence data

  

Types of sequence supported

    
 

Referenced sequence

Protein

mRNA

ESTs

Statistics

Alignment tool

Literature search

Organisms

SpliceNest

Genomic sequence

 

Yes

Yes

90,000 EST clusters

REPuter [23]

 

Human and Arabidopsis

PALS db (Release 2)

Message RNA

 

Yes

Yes

19,936 (human)

BLAST

 

Human and mouse

     

16,615 (mouse)

   
     

UniGene clusters

   

SpliceDB

Genomic sequence

 

Yes

Yes

43,337 splice site pairs

BLAST

Yes

Mammalian

AsMmDB (version 1.0)

Genomic sequence

 

Yes

Yes

1,563 alternative splicing genes

FASTA

Yes

Human, mouse and rat

ASDB (version 2.1)

 

Yes

  

1,922 proteins

 

Yes

 

HASDB

Genomic sequence

 

Yes

Yes

6,201 UniGene clusters

BLAST

 

Human

BLAT server

User-submitted sequence

Yes

Yes

Yes

 

BLAT

 

Human and mouse

ProSplicer

Genomic sequence

Yes

Yes

Yes

21,786 genes

BLAST (protein) SIM4 (mRNA and ESTs)

 

Human