Data(Base) For Gene Annotations/Models That Include Alternative Splicing For Human?

Question

[Deniz]

I'm aware of the gencode annotation, and RefSeq annotation. Those do a good job at providing gene annotations & models, showing where all the known exons / introns are. In practice, these types of annotations often mean presenting for each gene:

a collection of intervals that go together to form a gene, and some sort of meaningful tag/annotation for each of these intervals

Based on recent studies of splicing, what is available out there (supplementary materials / annotation files / databases) that do not only list intervals + annotations for a gene but also show alternative splicing structure? Present all the observed transcripts / isoforms in one annotation?

Thank you!

Answer 1

[Steve Lianoglou]

Not sure if this is what you are looking for, but AceView lists a ton of alternative splicing isoforms fora ton of genes.

Answer 2

[cdsouthan]

Ensembl is also well populated for human alternative splicing in their own graphic displays

You can look at the example for BACE1 in both

http://www.ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=ENSG00000186318;r=11:117156402-117186972;t=ENST00000313005

http://www.ncbi.nlm.nih.gov/IEB/Research/Acembly/av.cgi?db=human&term=BACE1&submit=Go

There maybe differences though