199_cds_sequence_discrepancy_note

sequence
discrepancy
curation

Find a protein's cross-referenced CDS/nucleotide entry that disagrees with the reviewed Swiss-Prot sequence, together with the curator's note on why (e.g. different initiation, sequence problems, frameshift) — real curation-quality content, distinct from modeling detail

Use at

https://sparql.uniprot.org/sparql/

PREFIX up: <http://purl.uniprot.org/core/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>

SELECT
  ?protein
  ?nucleotideEntry
  ?note
WHERE {
  ?protein a up:Protein ;
    up:reviewed true ;
    rdfs:seeAlso ?nucleotideEntry .
  ?nucleotideEntry a up:Nucleotide_Resource ;
    up:sequenceDiscrepancy ?discrepancy .
  ?discrepancy rdfs:comment ?note .
}

graph TD
classDef projected fill:lightgreen;
classDef literal fill:orange;
classDef iri fill:yellow;
  v3("?discrepancy")
  v4("?note"):::projected 
  v2("?nucleotideEntry"):::projected 
  v1("?protein"):::projected 
  c4(["true^^xsd:boolean"]):::literal 
  c6(["up:Nucleotide_Resource"]):::iri 
  c2(["up:Protein"]):::iri 
  v1 --"a"-->  c2
  v1 --"up:reviewed"-->  c4
  v1 --"rdfs:seeAlso"-->  v2
  v2 --"a"-->  c6
  v2 --"up:sequenceDiscrepancy"-->  v3
  v3 --"rdfs:comment"-->  v4