FxnSet

Defined in file docsum.asn
C++ class: CFxnSet


FxnSet ::= SEQUENCE {
  attlist SET {
    geneId INTEGER OPTIONAL, --gene-id of gene as aligned to contig
    
    --symbol (official if present in Entrez Gene) of
    --						gene
    symbol VisibleString OPTIONAL,
    mrnaAcc VisibleString OPTIONAL, --mRNA accession if variation in transcript
    
    --mRNA sequence version if variation is in
    --						transcripot
    mrnaVer INTEGER OPTIONAL,
    protAcc VisibleString OPTIONAL, --protein accession if variation in protein
    
    --protein version if variation is in
    --						protein
    protVer INTEGER OPTIONAL,
    
    --variation in region of gene, but not in
    --										transcript - deprecated
    fxnClass ENUMERATED {
      locus-region (1),
      coding-unknown (2),
      synonymous-codon (3),
      non-synonymous-codon (4),
      mrna-utr (5),
      intron-variant (6),
      splice-region-variant (7),
      reference (8),
      coding-exception (9),
      coding-sequence-variant (10),
      nc-transcript-variant (11),
      downstream-variant-500B (12),
      upstream-variant-2KB (13),
      nonsense (14),
      missense (15),
      frameshift-variant (16),
      utr-variant-3-prime (17),
      utr-variant-5-prime (18),
      splice-acceptor-variant (19),
      splice-donor-variant (20),
      cds-indel (21),
      stop-gained (22),
      stop-lost (23),
      complex-change-in-transcript (24),
      incomplete-terminal-codon-variant (25),
      nmd-transcript-variant (26),
      mature-miRNA-variant (27),
      upstream-variant-5KB (28),
      downstream-variant-5KB (29),
      intergenic (30)
    } OPTIONAL,
    readingFrame INTEGER OPTIONAL,
    
    --variation allele: * suffix indicates allele of contig at this
    --						location
    allele VisibleString OPTIONAL,
    residue VisibleString OPTIONAL, --translated amino acid residue for allele
    
    --position of the variant residue in peptide
    --						sequence
    aaPosition INTEGER OPTIONAL,
    mrnaPosition INTEGER OPTIONAL,
    soTerm VisibleString OPTIONAL
  },
  
  --functional relationship of SNP (and possibly alleles) to genes at
  --				contig location as defined in organism-specific bxxx_SNPContigLocusId_xxx
  --				tables.
  fxnSet NULL
}