The present invention relates to a gene discovery system and gene
expression systems specific for genes encoding ARE-containing mRNAs. In
one aspect, the present invention relates to computational methods of
selecting coding sequences of ARE-genes from databases using aone or more
ARE search sequences. The ARE search sequences are from 10 to 80
nucleotides in length and comprise a sequence which is encompassed by one
of the following two sequences: (a) WU/T(AU/TU/TU/TA)TWWW, SEQ ID NO. 1,
wherein none or one of the nucleotides outside of the parenthesis is
replaced by a different nucleotide, and wherein W represents A, U. or T;
and (b) U/T(AU/TU/T/U/T)n, SEQ ID NO. 2, wherein n indicates that the
search sequence comprises from 3 to 12 of the tetrameric sequences
contained within the parenthesis. The method comprises extracting from
the databases, those nucleic acids whose protein coding sequences are
upstream and contiguous with a 3'untranslated region (UTR) that comprises
one of the ARE search sequences. The present invention also relates to
methods of selectively amplifying RNA and cDNA molecules using primers
derived from and complementary to the consensus 5' sequence motifs and
primers derived from and complementary to the ARE search sequence. The
present invention also relates to methods of selectively amplifying ARE
genes which employ a 3' primer which is from 15 to 50 nucleotides and
length and comprises from 2 to 10 pentamers having the sequence TAAAT.
The pentameric sequences in the primers are either overlapping or
non-overlapping. The 3' primers are used in the reverse transcription
step of the methods, the polymerase chain reaction (PCR) amplification
step of the methods, or in both the reverse transcription step and the
PCR amplification step of the methods. The present invention also relates
to methods of making libraries which comprise portions of the ARE genes
that are selectively amplified by the present methods and to methods of
making microarrays which comprise probes that hybridize under stringent
conditions to portions of the protein coding sequences of the ARE genes
that are selectively amplified by the present methods. The present
invention also relates to libraries and the microarrays that are made by
such methods.