938e268e16bbcd34a1c98b98919df7d9869f588b
markd
  Fri Jun 5 18:57:32 2020 -0700
imported GENCODE V35 pre-release

diff --git src/hg/makeDb/schema/all.joiner src/hg/makeDb/schema/all.joiner
index b5d9406..1934e4c 100644
--- src/hg/makeDb/schema/all.joiner
+++ src/hg/makeDb/schema/all.joiner
@@ -2804,30 +2804,126 @@
     hg38.wgEncodeGencodeAnnotationRemarkV34.transcriptId dupeOk
     hg38.wgEncodeGencodeAttrsV34.transcriptId minCheck=0.10
 
 identifier wgEncodeGencodeEntrezGeneV34
 "Link together Gencode UniProt Support table with Attributes table"
     hg38.wgEncodeGencodeEntrezGeneV34.transcriptId dupeOk
     hg38.wgEncodeGencodeEntrezGeneV34.transcriptId minCheck=0.35
 
 identifier wgEncodeGencodeExonSupportV34
 "Link together Gencode Exon Support table with Attributes table"
     hg38.wgEncodeGencodeExonSupportV34.transcriptId dupeOk
     hg38.wgEncodeGencodeAttrsV34.transcriptId minCheck=0.90
 
 # end Gencode V34
 
+# begin Gencode V35
+
+# gencode genePred tables with no associations
+# wgEncodeGencodePolyaV35
+# wgEncodeGencode2wayConsPseudoV35
+
+# gencode genePred tables with joining through wgEncodeGencodeAttrsV35
+identifier wgEncodeGencodeBasicAttrsV35
+"Link together Gencode Basic Table with Attributes table"
+    hg38.wgEncodeGencodeAttrsV35.transcriptId
+    hg38.wgEncodeGencodeBasicV35.name
+
+identifier wgEncodeGencodeCompAttrsV35
+"Link together Gencode Comprehensive Table with Attributes table"
+    hg38.wgEncodeGencodeAttrsV35.transcriptId
+    hg38.wgEncodeGencodeCompV35.name
+
+identifier wgEncodeGencodePseudoGeneAttrsV35
+"Link together Gencode PseudoGene Table with Attributes table"
+    hg38.wgEncodeGencodeAttrsV35.transcriptId
+    hg38.wgEncodeGencodePseudoGeneV35.name
+
+# gencode association tables (joined through wgEncodeGencodeAttrsV35)
+identifier wgEncodeGencodeGeneSourceV35
+"Link together Gencode Gene Source table with Attributes table"
+    hg38.wgEncodeGencodeGeneSourceV35.geneId
+    hg38.wgEncodeGencodeAttrsV35.geneId
+
+identifier wgEncodeGencodeGeneSymbolV35
+"Link together Gencode gene symbol table with Attributes table"
+    hg38.wgEncodeGencodeGeneSymbolV35.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV35.transcriptId minCheck=0.20
+
+identifier wgEncodeGencodePdbV35
+"Link together Gencode Pdb table with Attributes table"
+    hg38.wgEncodeGencodePdbV35.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV35.transcriptId minCheck=0.015
+
+identifier wgEncodeGencodePubMedV35
+"Link together Gencode Pubmed table with Attributes table"
+    hg38.wgEncodeGencodePubMedV35.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV35.transcriptId  minCheck=0.63
+
+identifier wgEncodeGencodeRefSeqV35
+"Link together Gencode RefSeq table with Attributes table"
+    hg38.wgEncodeGencodeRefSeqV35.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV35.transcriptId minCheck=0.05
+
+identifier wgEncodeGencodeRefSeqToRefGeneV35
+"Link together Gencode RefSeq table with refGene track"
+    hg38.wgEncodeGencodeRefSeqV35.rnaAcc dupeOk chopAfter=.
+    hg38.refGene.name minCheck=0.77
+
+identifier wgEncodeGencodeTagV35
+"Link together Gencode Tag table with Attributes table"
+    hg38.wgEncodeGencodeTagV35.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV35.transcriptId minCheck=0.36
+    hg38.wgEncodeGencodeRefSeqV35.transcriptId minCheck=0.9
+
+identifier wgEncodeGencodeTranscriptSourceV35
+"Link together Gencode Transcript Source table with Attributes table"
+    hg38.wgEncodeGencodeTranscriptSourceV35.transcriptId
+    hg38.wgEncodeGencodeAttrsV35.transcriptId
+
+identifier wgEncodeGencodeTranscriptSupportV35
+"Link together Gencode Transcript Support table with Attributes table"
+    hg38.wgEncodeGencodeTranscriptSupportV35.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV35.transcriptId minCheck=0.20
+
+identifier wgEncodeGencodeTranscriptionSupportLevelV35
+"Link together Gencode Transcription Support Level table with Attributes table"
+    hg38.wgEncodeGencodeTranscriptionSupportLevelV35.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV35.transcriptId minCheck=0.30
+
+identifier wgEncodeGencodeUniProtV35
+"Link together Gencode UniProt Support table with Attributes table"
+    hg38.wgEncodeGencodeUniProtV35.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV35.transcriptId minCheck=0.35
+
+identifier wgEncodeGencodeAnnotationRemarkV35
+"Link together Gencode Annotation Remark table with Attributes table"
+    hg38.wgEncodeGencodeAnnotationRemarkV35.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV35.transcriptId minCheck=0.10
+
+identifier wgEncodeGencodeEntrezGeneV35
+"Link together Gencode UniProt Support table with Attributes table"
+    hg38.wgEncodeGencodeEntrezGeneV35.transcriptId dupeOk
+    hg38.wgEncodeGencodeEntrezGeneV35.transcriptId minCheck=0.35
+
+identifier wgEncodeGencodeExonSupportV35
+"Link together Gencode Exon Support table with Attributes table"
+    hg38.wgEncodeGencodeExonSupportV35.transcriptId dupeOk
+    hg38.wgEncodeGencodeAttrsV35.transcriptId minCheck=0.90
+
+# end Gencode V35
+
 
 
 # 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