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/refFlat.as src/hg/lib/refFlat.as
index ea3cf5d..57f3d0a 100644
--- src/hg/lib/refFlat.as
+++ src/hg/lib/refFlat.as
@@ -1,16 +1,16 @@
 table refFlat
 "A gene prediction with additional geneName field."
     (
     string  geneName;           "Name of gene as it appears in genome 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)"
     )