src/hg/lib/gbSeq.as 1.3

Index: src/hg/lib/gbSeq.as
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/lib/gbSeq.as,v
retrieving revision 1.2
retrieving revision 1.3
diff -b -B -U 1000000 -r1.2 -r1.3
--- src/hg/lib/gbSeq.as	29 Apr 2010 03:40:21 -0000	1.2
+++ src/hg/lib/gbSeq.as	3 May 2010 23:45:47 -0000	1.3
@@ -1,26 +1,14 @@
-table gbCdnaInfo
-"Links together various info associated with a GenBank mRNA or EST"
+table gbSeq
+"Information about sequences contained in files described in gbExtFile"
     (
-    uint id;	"Unique numerical id for cDNA"
-    string acc; "Genbank/EMBL accession (without .version)"
-    ushort version; "Version number in Genbank"
-    string moddate; "Date last modified, in SQL DATE format/ascii YYYY-MM-DD"
-    string type; "Either EST or mRNA.  In SQL an ENUM"
-    string direction; "Enum 5, 3 for read direction 5'/3', or 0 unknown."
-    uint source;      "Link to id in source table saying where cDNA came from"
-    uint organism;    "Link to id in organism table."
-    uint library;     "Link to id in library table."
-    uint mrnaClone;   "Link to id in mrnaClone table."
-    uint sex;         "Link to id in sex table"
-    uint tissue;      "Link to id in tissue table"
-    uint development; "Link to id in development table"
-    uint cell;        "Link to id in cell table"
-    uint cds;         "Link to id in cds table"
-    uint keyword;     "Link to id in keyword table"
-    uint description; "Link to id in description table"
-    uint geneName;    "Link to id in geneName table"
-    uint productName; "Link to id in productName table"
-    uint author;      "Link to id in author table"
-    uint gi;          "Genbank identifier"
-    enum ('DNA', 'RNA', 'ds-RNA', 'ds-mRNA', 'ds-rRNA', 'mRNA', 'ms-DNA', 'ms-RNA', 'rRNA', 'scRNA', 'snRNA', 'snoRNA', 'ss-DNA', 'ss-RNA', 'ss-snoRNA', 'tRNA') mol; "molecule type"
+    uint id;		"ID/index"
+    string acc;		"Accession of sequence"
+    int version;        "Genbank version"
+    uint size;		"Size of sequence (number of bases)"
+    uint gbExtFile;	"ID/index of file in gbExtFile"
+    bigint file_offset;	"byte offset of sequence in file"
+    bigint file_size;	"byte size of sequence in file"
+    enum('EST','mRNA','PEP')  type;   "Type of sequence"
+    enum('GenBank','RefSeq','Other') srcDb;  "Source database"
     )
+