SEA-PHAGES | Submit Sequence to GenBank Validation Errors

Link to this post \| posted 04 Mar, 2020 17:10
smg366	I am an expedited submitter, and have been doing the validation process for a number of phages without any errors appearing. I have just tired to validate phage BeautPeep30, and I have a lot of errors. But I can't see any issues on the DNA Master final file. Errors: ERROR: valid [SEQ_FEAT.StartCodon] Illegal start codon used. Wrong genetic code [1] or protein should be partial FEATURE: CDS: hypothetical protein [lcl\|BeautPeep30:c40034-39648] [lcl\|BeautPeep30: raw, dna len= 41809] -> [lcl\|BeautPeep30_60] ERROR: valid [SEQ_FEAT.StartCodon] Illegal start codon used. Wrong genetic code [1] or protein should be partial FEATURE: CDS: hypothetical protein [lcl\|BeautPeep30:c40390-40031] [lcl\|BeautPeep30: raw, dna len= 41809] -> [lcl\|BeautPeep30_61] ERROR: valid [SEQ_INST.BadProteinStart] gap symbol at start of protein sequence (2 - terminase) BIOSEQ: lcl\|BeautPeep30_2: raw, aa len= 466 ERROR: valid [SEQ_INST.BadProteinStart] gap symbol at start of protein sequence (7 - hypothetical protein) BIOSEQ: lcl\|BeautPeep30_7: raw, aa len= 82 Can anyone see what I did incorrectly? I have attached the final DNA Master file. Many thanks, Susan 28Kb

Link to this post | posted 04 Mar, 2020 17:10

I am an expedited submitter, and have been doing the validation process for a number of phages without any errors appearing. I have just tired to validate phage BeautPeep30, and I have a lot of errors. But I can't see any issues on the DNA Master final file.

Errors:
ERROR: valid [SEQ_FEAT.StartCodon] Illegal start codon used. Wrong genetic code [1] or protein should be partial FEATURE: CDS: hypothetical protein [lcl|BeautPeep30:c40034-39648] [lcl|BeautPeep30: raw, dna len= 41809] -> [lcl|BeautPeep30_60]
ERROR: valid [SEQ_FEAT.StartCodon] Illegal start codon used. Wrong genetic code [1] or protein should be partial FEATURE: CDS: hypothetical protein [lcl|BeautPeep30:c40390-40031] [lcl|BeautPeep30: raw, dna len= 41809] -> [lcl|BeautPeep30_61]
ERROR: valid [SEQ_INST.BadProteinStart] gap symbol at start of protein sequence (2 - terminase) BIOSEQ: lcl|BeautPeep30_2: raw, aa len= 466
ERROR: valid [SEQ_INST.BadProteinStart] gap symbol at start of protein sequence (7 - hypothetical protein) BIOSEQ: lcl|BeautPeep30_7: raw, aa len= 82
Can anyone see what I did incorrectly? I have attached the final DNA Master file.
Many thanks,
Susan

Link to this post \| posted 04 Mar, 2020 17:31
debbie	Maria, I just took your file and generated a GenBank file with no errors. Did you choose the "Bacteria and Plant Plastid Code" on the Description pane of Submit to GenBank? all of the genes you have errors for have GTG starts (I think). debbie

Link to this post \| posted 04 Mar, 2020 18:22
smg366	Thank you Debbie, I didn't have the genetic code selected. Sorry to trouble you. Susan

Link to this post \| posted 04 Mar, 2020 19:42
debbie	Success! always a good day! debbie

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Submit Sequence to GenBank Validation Errors