Hi everyone!

As a beginner, I have a question regarding uploading sequences to BOLD (and GeneBank). I have obtained several raw plant sequences using rbcL, matK, trnL and trnH plastid primers. As I know, should delete stop codons before uploading the sequences anywhere. However, there are several translations that I can use. If I use Code 11 (Bacterial, Archeal, and Plant Plastid) with 'ATG or alternative initiation codons' in Orffinder, I receive the final sequence ca. 450 bp. However, when I upload it to BOLD, it says that the stop codon is detected and automatically identifies code 1 (Standard) as a translation matrix. Whether I apply code 1 in Orffinder with 'ATG or alternative initiation codons', I receive ca. 250 bp resulting sequence, which is almost twice shorter compared to code 11. But in such a case, no stop codons are detected. As for me, it looks more correct to apply code 11, but I cannot understand why it results in an error in BOLD (and probably will result in an error if I will try to upload to GeneBank). What am I doing wrong?