4
$\begingroup$

Can anyone explain me, why I don't find a specific protein with a blast that was took before from the NCBI refseq database?

Specifically, I was trying to blast the protein with the accession number "NP_420767" and its sequence, respectively, however that protein does not show up in the results. It not only happens when the standard options are chosen, but also, when "Reference proteins (refseq_protein)" as database in the blast options is selected.

I am really puzzled by that.. Shouldn't blast show the initial refseq entry in the results list as it is part of the refseq database and has the same sequence?

Improve this question
$\endgroup$
1

1 Answer 1

Reset to default
2
$\begingroup$

NP_420767 is represented by the non-redundant refSeq protein WP_010919826, which has the same amino acid sequence. This is not very clearly annotated, but if you scroll down to the sequence in the GenPept entry for NP_420767, you'll see the following:

CONTIG      join(WP_010919826.1:1..799)

See here for more info.

Improve this answer
$\endgroup$
1
  • $\begingroup$ Ah, I understand.. And in the list after clicking on "identical proteins" on the "WP_010919826.1" site, "NP_420767" gets listed. $\endgroup$
    – Matthias F.
    Jul 25, 2017 at 12:00

Your Answer

By clicking “Post Your Answer”, you agree to our terms of service and acknowledge that you have read and understand our privacy policy and code of conduct.

Not the answer you're looking for? Browse other questions tagged or ask your own question.