I can't seem to understand how come for a single gene ATMG00060.1, TAIR seems to show different CDS and cDNA sequence as both the CDS and cDNA have the same sequence length and the gene contains seemingly no 5' UTR sequence?
Corresponding links are as follows:
Gene ATMG00060.1: http://arabidopsis.org/servlets/TairObject?id=1000647816&type=gene
Can anyone explain what's happening here?
Another very general question about splicing order:
Suppose my gene has two exons:
Exon 1's position is: complement[21691:22086] as i have the DNA sequence of the opposite strand
Exon 2's position is: complement [20570:20717] as i have the DNA sequence of the opposite strand
So which splicing order is correct :
Final spliced mRNA = Reverse complement of (Exon1 + Exon2) or Final spliced mRNA = Reverse complement of (Exon2 + Exon1)
Also, can anyone expand on the reason why in removing alternative splice variants, the one bearing longest CDS is selected for? Is there any relationship between CDS length and mRNA stability?