Date
FRONTIERS IN BIOSCIENCE;
GENE FINDER
Time:



 Use the database of BCM-Genefinder to find splice sites
and protein coding exons, construct gene model and recognize the promotor and poly-A region
Place the DNA sequence < 7000 bp in the query box.
For longer DNA sequences, use Email servers:

Sequence name or identifier:
Choose search method for Human, Drosophila, Nematode, Yeast and Plant sequence analysis:

[H][O][P] = [H]:Help/description; [O]:full Options search; [P]:search Parameters

FGENEHB and FEXB: These are programs with better accuracy than Fgeneh or Fexh that
predict gene structure and identify exons using additional information becomes available
after protein database searching by FASTA .These programs can be run only locally. These
programs can be obtained via ftp at [gc.bcm.tmc.edu]. Click here for specific instructions
[H].

FGENEH / construction of gene model by exon assembling [H] [O] [P]
FEXH / search for potential 5'-, internal and 3'-coding exons [H] [O] [P]
HEXON / search for potential internal exons [H] [O] [P]
HSPL / search for potential splice sites [H] [O] [P]
RNASPL / search for exon-exon junction positions in cDNA [H]
CDSB / search for Protein coding region in E.coli [H]
HBR / recognition of Human and E.coli sequences [H]
POLYAH / Recognition of 3'-end cleavage and polyadenilation region [H]
TSSG / Recognition of human PolII promoter region and start of transcription [H]
TSSW / Recognition of human PolII promoter region and start of transcription [H]
FGENED / construction of gene model by Drosophila exon assembling [H]
FEXD / search for Drosophila potential 5'-, internal and 3'-coding exons [H]
DSPL / search for potential splice sites in Drosophila sequences [H]
FGENEN / construction of gene model by Nematode exon assembling [H]
FEXN / search for Nematode potential 5'-, internal and 3'-coding exons [H]
NSPL / search for potential splice sites in Nematode sequences [H]
FGENEA / construction of gene model by Plant exon assembling [H]
FEXA / search for Plant potential 5'-, internal and 3'-coding exons [H]
ASPL / search for potential splice sites in Plant sequences [H]
FEXY / search for Yeast potential 5'-, internal and 3'-coding exons [H]
YSPL / search for potential splice sites in Yeast sequences [H]