10

Find most conservative single copy Danio rerio genes at the Vertebrata level

Use at

• https://sparql.orthodb.org/sparql/

PREFIX up: <http://purl.uniprot.org/core/>
PREFIX : <http://purl.orthodb.org/>

SELECT ?og ?gene ?description ?evolrate
WHERE {
    ?gene a :Gene; :description ?description; up:organism/a [up:scientificName "Danio rerio"].
    ?gene :memberOf ?og.
    ?og :ogBuiltAt [up:scientificName "Vertebrata"].
    ?og a :OrthoGroup; :ogPercentSingleCopy 100; :ogEvolRate ?evolrate.
    FILTER(?evolrate < 1)
}
ORDER BY ?evolrate

graph TD
classDef projected fill:lightgreen;
classDef literal fill:orange;
classDef iri fill:yellow;
  v3("?description"):::projected 
  v1("?evolrate"):::projected 
  v2("?gene"):::projected 
  v4("?og"):::projected 
  a2((" "))
  a1((" "))
  a3((" "))
  c3([":Gene"]):::iri 
  c11([":OrthoGroup"]):::iri 
  c6(["Danio rerio"]):::literal 
  c13(["100^^xsd:integer"]):::literal 
  c9(["Vertebrata"]):::literal 
  f0[["?evolrate < '1^^xsd:integer'"]]
  f0 --> v1
  v2 --"a"-->  c3
  v2 --":description"-->  v3
  a1 --"up:scientificName"-->  c6
  v2 --"up:organism"-->  a2
  a2 --"a"-->  a1
  v2 --":memberOf"-->  v4
  a3 --"up:scientificName"-->  c9
  v4 --":ogBuiltAt"-->  a3
  v4 --"a"-->  c11
  v4 --":ogPercentSingleCopy"-->  c13
  v4 --":ogEvolRate"-->  v1