4440223fad68a002964802e0ecf3b1b94cb28503
markd
  Sat Nov 16 10:11:29 2019 -0800
import of gencode V33 prerelase

diff --git src/hg/makeDb/schema/all.joiner src/hg/makeDb/schema/all.joiner
index ebeaecd..d4994b1 100644
--- src/hg/makeDb/schema/all.joiner
+++ src/hg/makeDb/schema/all.joiner
@@ -2610,30 +2610,127 @@
     hg38.wgEncodeGencodeAnnotationRemarkV32.transcriptId dupeOk
     hg38.wgEncodeGencodeAttrsV32.transcriptId minCheck=0.10
 
 identifier wgEncodeGencodeEntrezGeneV32
 "Link together Gencode UniProt Support table with Attributes table"
     hg38.wgEncodeGencodeEntrezGeneV32.transcriptId dupeOk
     hg38.wgEncodeGencodeEntrezGeneV32.transcriptId minCheck=0.35
 
 identifier wgEncodeGencodeExonSupportV32
 "Link together Gencode Exon Support table with Attributes table"
     hg38.wgEncodeGencodeExonSupportV32.transcriptId dupeOk
     hg38.wgEncodeGencodeAttrsV32.transcriptId minCheck=0.90
 
 # end Gencode V32
 
+# begin Gencode V33
+
+# gencode genePred tables with no associations
+# wgEncodeGencodePolyaV33
+# wgEncodeGencode2wayConsPseudoV33
+
+# gencode genePred tables with joining through wgEncodeGencodeAttrsV33
+identifier wgEncodeGencodeBasicAttrsV33
+"Link together Gencode Basic Table with Attributes table"
+    hg38.wgEncodeGencodeAttrsV33.transcriptId
+    hg38.wgEncodeGencodeBasicV33.name
+
+identifier wgEncodeGencodeCompAttrsV33
+"Link together Gencode Comprehensive Table with Attributes table"
+    hg38.wgEncodeGencodeAttrsV33.transcriptId
+    hg38.wgEncodeGencodeCompV33.name
+
+identifier wgEncodeGencodePseudoGeneAttrsV33
+"Link together Gencode PseudoGene Table with Attributes table"
+    hg38.wgEncodeGencodeAttrsV33.transcriptId
+    hg38.wgEncodeGencodePseudoGeneV33.name
+
+# gencode association tables (joined through wgEncodeGencodeAttrsV33)
+identifier wgEncodeGencodeGeneSourceV33
+"Link together Gencode Gene Source table with Attributes table"
+    hg38.wgEncodeGencodeGeneSourceV33.geneId
+    hg38.wgEncodeGencodeAttrsV33.geneId
+
+identifier wgEncodeGencodeGeneSymbolV33
+"Link together Gencode gene symbol table with Attributes table"
+    hg38.wgEncodeGencodeGeneSymbolV33.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV33.transcriptId minCheck=0.20
+
+identifier wgEncodeGencodePdbV33
+"Link together Gencode Pdb table with Attributes table"
+    hg38.wgEncodeGencodePdbV33.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV33.transcriptId minCheck=0.015
+
+identifier wgEncodeGencodePubMedV33
+"Link together Gencode Pubmed table with Attributes table"
+    hg38.wgEncodeGencodePubMedV33.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV33.transcriptId  minCheck=0.63
+
+identifier wgEncodeGencodeRefSeqV33
+"Link together Gencode RefSeq table with Attributes table"
+    hg38.wgEncodeGencodeRefSeqV33.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV33.transcriptId minCheck=0.05
+
+identifier wgEncodeGencodeRefSeqToRefGeneV33
+"Link together Gencode RefSeq table with refGene track"
+    hg38.wgEncodeGencodeRefSeqV33.rnaAcc dupeOk chopAfter=.
+    hg38.refGene.name minCheck=0.77
+
+identifier wgEncodeGencodeTagV33
+"Link together Gencode Tag table with Attributes table"
+    hg38.wgEncodeGencodeTagV33.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV33.transcriptId minCheck=0.36
+    hg38.wgEncodeGencodeRefSeqV33.transcriptId minCheck=0.9
+
+identifier wgEncodeGencodeTranscriptSourceV33
+"Link together Gencode Transcript Source table with Attributes table"
+    hg38.wgEncodeGencodeTranscriptSourceV33.transcriptId
+    hg38.wgEncodeGencodeAttrsV33.transcriptId
+
+identifier wgEncodeGencodeTranscriptSupportV33
+"Link together Gencode Transcript Support table with Attributes table"
+    hg38.wgEncodeGencodeTranscriptSupportV33.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV33.transcriptId minCheck=0.20
+
+identifier wgEncodeGencodeTranscriptionSupportLevelV33
+"Link together Gencode Transcription Support Level table with Attributes table"
+    hg38.wgEncodeGencodeTranscriptionSupportLevelV33.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV33.transcriptId minCheck=0.30
+
+identifier wgEncodeGencodeUniProtV33
+"Link together Gencode UniProt Support table with Attributes table"
+    hg38.wgEncodeGencodeUniProtV33.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV33.transcriptId minCheck=0.35
+
+identifier wgEncodeGencodeAnnotationRemarkV33
+"Link together Gencode Annotation Remark table with Attributes table"
+    hg38.wgEncodeGencodeAnnotationRemarkV33.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV33.transcriptId minCheck=0.10
+
+identifier wgEncodeGencodeEntrezGeneV33
+"Link together Gencode UniProt Support table with Attributes table"
+    hg38.wgEncodeGencodeEntrezGeneV33.transcriptId dupeOk
+    hg38.wgEncodeGencodeEntrezGeneV33.transcriptId minCheck=0.35
+
+identifier wgEncodeGencodeExonSupportV33
+"Link together Gencode Exon Support table with Attributes table"
+    hg38.wgEncodeGencodeExonSupportV33.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV33.transcriptId minCheck=0.90
+
+# end Gencode V33
+
+
 # begin Gencode V24lift37
 
 # gencode genepreds with no associations
 # wgEncodeGencodePolyaV24lift37
 # wgEncodeGencode2wayConsPseudoV24lift37
 
 # gencode genepreds with joining through wgEncodeGencodeAttrsV24lift37
 identifier wgEncodeGencodeBasicAttrsV24lift37
 "Link together Gencode Basic Table with Attributes table"
     hg19.wgEncodeGencodeAttrsV24lift37.transcriptId
     hg19.wgEncodeGencodeBasicV24lift37.name
 
 identifier wgEncodeGencodeCompAttrsV24lift37
 "Link together Gencode Comprehensive Table with Attributes table"
     hg19.wgEncodeGencodeAttrsV24lift37.transcriptId