- The splice variant database has been rebuilt with the latest genomic and transcript
data available from NCBI. See the Database FAQ for details.
- 6 new organisms have been added to SpliceCenter: A. A. thaliana, B. taurus, C. elegans,
D. melanogaster, D. rerio, and O. sativa.
- 16 additional microarray platforms have been added to Array-Check and Primer-Check.
- Users may now hide or show NMD splice variants in the interactive utilities by selecting
'Show NMD Variants' in the Display Options section.
- To correct for missing UTR sequence in GenBank transcript sequences, SpliceCenter
now predicts the likely extent of variant UTRs by comparison with other transcripts
and known poly(A) sites. The predicted UTR sections are drawn as hollow exon segments
at the ends of transcripts. The UTR correction has allowed us to more accurately prune
duplicate splice variants in the database so that the variants shown represent true
splice variation. Predicted UTR segments also provide a more accurate determination of
the variants that will / will not be targeted by a given probe. In the following example,
The first exon of variants AB028869 through DQ227257 have predicted 5' UTR sections (drawn
as hollow boxes at the beginning of exon 1. Also, exon 6 of AB028869 has a predicted 3' UTR
- SpliceCenter now contains mappings of Pfam domains to splice variants. Simply select
the 'Show domains?' check box in the Display options section of Array-Check, Primer-Check,
siRNA-Check, Peptide-Check or Expression-Check. Colored boxes will then be displayed around
the portion of transcripts that code for known protein domains. This feature can be used
to identify splice variants that alter the domain composition of the resulting protein.
It may also be used to find probes that target coding regions of specific protein domains.
When protein domains are displayed, you may click on the domain name in the legend to link
to the Pfam site for a description of each domain.