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Question: transcription start site
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gravatar for talgolan
4.1 years ago by
talgolan • 0
Israel
talgolan • 0 wrote:

Hi,

I wonder about the definition of transcription start site.. assuming that the first exon consists UTR, is it right to say that the TSS=the first nucleotide of the first exon? and if you agree with that definition,the TSS is the first coordinate of the gene, given by UCSC?

Thanks
transcription gene • 2.3k views
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modified 4.1 years ago by Jennifer Hillman Jackson ♦ 25k • written 4.1 years ago by talgolan • 0
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gravatar for Jennifer Hillman Jackson
4.1 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

In general this is correct. The track you are examining will make a difference, but for a transcript/gene track such as RefSeq or Known Genes (aka most in the Gene and Gene Prediction group) this is true.

transcription start site = where transcription begins, include the 5' UTR

translation start side = where translation begins, meaning the start of coding region. generally within the first few exons and any particular gene will have many associated transcripts with alternates here, often with various changes in the UTR/promoter regions. This is part of genomic variation at a more macro level than say, a SNP. if the protein product is distinct, UCSC will keep the transcripts as individual variants.

Jen
ADD COMMENT • link written 4.1 years ago by Jennifer Hillman Jackson ♦ 25k
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