f3463c39dcd4e6f8aaff1f4142cf0101b567b435
max
  Fri Mar 4 02:01:44 2022 -0800
updating cdsStartStat docs, refs #29030

diff --git src/hg/htdocs/goldenPath/help/bigGenePred.html src/hg/htdocs/goldenPath/help/bigGenePred.html
index 085f78f..edd1943 100755
--- src/hg/htdocs/goldenPath/help/bigGenePred.html
+++ src/hg/htdocs/goldenPath/help/bigGenePred.html
@@ -46,31 +46,32 @@
     uint thickEnd;      	"End of where display should be thick (stop codon)"
     uint reserved;       	"RGB value (use R,G,B string in input file)"
     int blockCount;     	"Number of blocks"
     int[blockCount] blockSizes; "Comma separated list of block sizes"
     int[blockCount] chromStarts;"Start positions relative to chromStart"
     string name2;       	"Alternative/human readable name"
     string cdsStartStat; 	"Status of CDS start annotation (none, unknown, incomplete, or complete)"
     string cdsEndStat;   	"Status of CDS end annotation (none, unknown, incomplete, or complete)"
     int[blockCount] exonFrames; "Exon frame {0,1,2}, or -1 if no frame for exon"
     string type;        	"Transcript type"
     string geneName;    	"Primary identifier for gene"
     string geneName2;   	"Alternative/human-readable gene name"
     string geneType;    	"Gene type"
     )  </code></pre>
 
-<p><b>cdsStartStat/cdsEndStat</b>: If you want only protein-coding transcripts, then filter for cdsStartStat='cmpl' and cdsEndStat='cmpl'. Non-coding transcripts have either one of these set to 'incmpl'.
+<p>The fields cdsStartStat and cdsEndStat can have the values ('none','unk','incmpl','cmpl'). However, the values are not used for our display and can not be 
+used to subset for coding or non-coding genes. For most purposes, to get more information about a transcript, other tables will need to be used e.g. in the case of hg38, the tables named wgEncodeGencodeAttrsVxx, where xx is the Gencode Version number.
 </p>
 
 <p>
 The following bed12+8 is an example of a <a href="examples/bigGenePred.txt">pre-bigGenePred text file
 </a>.</p>
 
 <h2>Creating a bigGenePred track from a bed12+8 file</h2>
 <p>
 <strong>Step 1.</strong> 
 Format your pre-bigGenePred file. The first 12 fields of pre-bigGenePred files are described by the
 <a href="../../FAQ/FAQformat.html#format1">BED file format</a>. Your file must
 also contain the 8 extra fields described in the autoSql file definition 
 shown above: <code>name2, cdsStartStat, cdsEndStat, exonFrames, type, geneName, geneName2, 
 geneType</code>. For example, you can use this bed12+8 input file, 
 <a href="examples/bigGenePred.txt">bigGenePred.txt</a>. Your pre-bigGenePred file must be sorted