Question: What is a different isoform in Flybase?
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gravatar for skmook16
3.7 years ago by
skmook160
skmook160 wrote:

When I find genes from Flybase, some genes have a couple isoforms (transcript variants). I wonder how they are generated. Alternative splicing or alternative promoter? For example, I searched a MDR49 gene and there are two different isoforms. They are generated by alternative splicing or alternative promoter?

Thanks!!

rna-seq sequence gene • 1.1k views
ADD COMMENTlink modified 3.7 years ago by natasha.sernova3.7k • written 3.7 years ago by skmook160
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gravatar for natasha.sernova
3.7 years ago by
natasha.sernova3.7k
natasha.sernova3.7k wrote:

See this link:

http://flybase.org/static_pages/newhelp/gbrowse_geneModels_evidence_help.html

and "allows prediction of alternatively spliced isoforms" in it.

The whole paragraph:

"NCBI gnomon Gene prediction (coding region of transcript) generated via a hidden Markov model using transcript alignment constraints and protein hit information, if available; allows prediction of alternatively spliced isoforms (Souvorov, et al., 2006, NCBI); submitted by J. Ostell. "

http://flybase.org/reports/FBgn0259246.html

In the upper right corner replace :"Jump to gene" to your preferred gene-name and press GO:

You will get this page:

http://flybase.org/reports/FBgn0004512.html

Again on the left you can play with "gene region": intron, exons, etc.

ADD COMMENTlink modified 3.7 years ago • written 3.7 years ago by natasha.sernova3.7k
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