[ensembl-dev] TSL vs Gencode Basic

[Wolf Beat]

I'm trying to better understand the TSL for Human genes and some things i noticed with the Gencode basic annotation.


Basically i wanted to know if there is any relation between the two. I have two examples:


http://www.ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=ENSG00000197283;r=6:33419661-33457541


Here we see SYNGAP1-230 which has the Gencode basic annotation, but no TSL support level at all. Is there a specific reason why? Considering that its protein coding, has a refseq, uniprot and ccds id and is in gencode basic, i would have intuitively assumed it to be TSL1, but certainly not without any TSL.


A second example i don't fully understand is (but which is less confusing):
http://www.ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=ENSG00000109063;r=17:10628526-10657309

here the only protein coding transcript is in gencode basic, but has TSL5. If i understood gencode basic correctly, they are supposed to be transcripts of a good quality. TSL5 seems to indicate the contrary.

So my main question is, why do some transcripts, even if they are in gencode basic, not have a TSL level? I would also be interested in the other questions raised in this email, but thats the one i'm most interested in.

Kind regards

Beat Wolf