c257290253d707d2fc749e277f7a96c771accb80
mspeir
  Fri Jan 13 13:29:35 2017 -0800
Adding more detail to transcription/coding/exons start/end columns, refs #18548

diff --git src/hg/lib/knownGene.as src/hg/lib/knownGene.as
index b10fc82..ad89a4b 100644
--- src/hg/lib/knownGene.as
+++ src/hg/lib/knownGene.as
@@ -1,17 +1,17 @@
 table knownGene
 "Transcript from default gene set in UCSC browser"
 (
 string  name;               "Name of gene"
 string  chrom;              "Reference sequence chromosome or scaffold"
 char[1] strand;             "+ or - for strand"
-uint    txStart;            "Transcription start position"
-uint    txEnd;              "Transcription end position"
-uint    cdsStart;           "Coding region start"
-uint    cdsEnd;             "Coding region end"
+uint    txStart;            "Transcription start position (or transcription end position if item is on minus strand)"
+uint    txEnd;              "Transcription end position (or transcription start position if item is on minus strand)"
+uint    cdsStart;           "Coding region start (or coding end position if item is on minus strand)"
+uint    cdsEnd;             "Coding region end (or coding start position if item is on minus strand)"
 uint    exonCount;          "Number of exons"
-uint[exonCount] exonStarts; "Exon start positions"
-uint[exonCount] exonEnds;   "Exon end positions"
+uint[exonCount] exonStarts; "Exon start positions (or exon end positions if item is on minus strand)"
+uint[exonCount] exonEnds;   "Exon end positions (or exon start positions if item is on minus strand)"
 string  proteinID;          "UniProt display ID, UniProt accession, or RefSeq protein ID" 
-string  alignID;            "Unique identifier (GENCODE transcript ID for GENCODE Basic"
+string  alignID;            "Unique identifier (GENCODE transcript ID for GENCODE Basic)"
 )