Transcript details from exome sequencing!!!

[Nilaksha]

I know my question is silly, but after seeing the same thing on so many places I had to ask this question.
Is there any possibility to predict the specific transcript (obtained by alternative splicing) of a gene present in a particular individual just by exome sequencing and calling variants?

Because we got an analysis report from a recognized institute for an exome sequence we sent which says that they have identified a nucleotide substitution of xxxxx gene, A>G and they have given the transcript ID [ENST00000xxx] as well.

And when I explored further I found this from 1000genomes where they only did exome sequencing but no any RNA-SEQ but have annotated SNPs with transcript IDs.

http://pilotbrowser.1000genomes.org/Homo_sapiens/Gene/Variation_Gene/Table?db=core;g=ENSG00000070814;r=5:149717428-149740111;t=ENST00000323668#ALL

Please could somebody explain this to me? I'm a novice bioinformatician

[Brian Bushnell]

You can call variations from exome sequencing, and then annotate them with what the impact is on each of the known transcripts of a gene. This does not actually predict which transcripts will be present, just what they would look like if they were present.

[swbarnes2]

No. How could you be sure that a splice site was really a working splice site, without RNA data?

Someone is using published transcripts, not deducing it de novo from your data.