f74b788fef738178f0e2f85588f196c26d8f60e2
markd
  Wed Apr 7 10:58:29 2021 -0700
import of gencode VM27 pre-release

diff --git src/hg/makeDb/schema/all.joiner src/hg/makeDb/schema/all.joiner
index 86ff309..f4da976 100644
--- src/hg/makeDb/schema/all.joiner
+++ src/hg/makeDb/schema/all.joiner
@@ -5964,30 +5964,125 @@
     mm39.wgEncodeGencodeAnnotationRemarkVM26.transcriptId dupeOk
     mm39.wgEncodeGencodeAttrsVM26.transcriptId minCheck=0.10
 
 identifier wgEncodeGencodeEntrezGeneVM26
 "Link together Gencode UniProt Support table with Attributes table"
     mm39.wgEncodeGencodeEntrezGeneVM26.transcriptId dupeOk
     mm39.wgEncodeGencodeEntrezGeneVM26.transcriptId minCheck=0.35
 
 identifier wgEncodeGencodeExonSupportVM26
 "Link together Gencode Exon Support table with Attributes table"
     mm39.wgEncodeGencodeExonSupportVM26.transcriptId dupeOk
     mm39.wgEncodeGencodeAttrsVM26.transcriptId minCheck=0.38
 
 # end Gencode VM26
 
+# begin Gencode VM27
+
+# gencode genePred tables with no associations
+# wgEncodeGencodePolyaVM27
+# wgEncodeGencode2wayConsPseudoVM27
+
+# gencode genePred tables with joining through wgEncodeGencodeAttrsVM27
+identifier wgEncodeGencodeBasicAttrsVM27
+"Link together Gencode Basic Table with Attributes table"
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId
+    mm39.wgEncodeGencodeBasicVM27.name
+
+identifier wgEncodeGencodeCompAttrsVM27
+"Link together Gencode Comprehensive Table with Attributes table"
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId
+    mm39.wgEncodeGencodeCompVM27.name
+
+identifier wgEncodeGencodePseudoGeneAttrsVM27
+"Link together Gencode PseudoGene Table with Attributes table"
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId
+    mm39.wgEncodeGencodePseudoGeneVM27.name
+
+# gencode association tables (joined through wgEncodeGencodeAttrsVM27)
+identifier wgEncodeGencodeGeneSourceVM27
+"Link together Gencode Gene Source table with Attributes table"
+    mm39.wgEncodeGencodeGeneSourceVM27.geneId
+    mm39.wgEncodeGencodeAttrsVM27.geneId
+
+identifier wgEncodeGencodeGeneSymbolVM27
+"Link together Gencode gene symbol table with Attributes table"
+    mm39.wgEncodeGencodeGeneSymbolVM27.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId minCheck=0.20
+
+identifier wgEncodeGencodePdbVM27
+"Link together Gencode Pdb table with Attributes table"
+    mm39.wgEncodeGencodePdbVM27.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId minCheck=0.015
+
+identifier wgEncodeGencodePubMedVM27
+"Link together Gencode Pubmed table with Attributes table"
+    mm39.wgEncodeGencodePubMedVM27.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId  minCheck=0.63
+
+identifier wgEncodeGencodeRefSeqVM27
+"Link together Gencode RefSeq table with Attributes table"
+    mm39.wgEncodeGencodeRefSeqVM27.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId minCheck=0.05
+
+identifier wgEncodeGencodeRefSeqToRefGeneVM27
+"Link together Gencode RefSeq table with refGene track"
+    mm39.wgEncodeGencodeRefSeqVM27.rnaAcc dupeOk chopAfter=.
+    mm39.refGene.name minCheck=0.77
+
+identifier wgEncodeGencodeTagVM27
+"Link together Gencode Tag table with Attributes table"
+    mm39.wgEncodeGencodeTagVM27.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId minCheck=0.36
+
+identifier wgEncodeGencodeTranscriptSourceVM27
+"Link together Gencode Transcript Source table with Attributes table"
+    mm39.wgEncodeGencodeTranscriptSourceVM27.transcriptId
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId
+
+identifier wgEncodeGencodeTranscriptSupportVM27
+"Link together Gencode Transcript Support table with Attributes table"
+    mm39.wgEncodeGencodeTranscriptSupportVM27.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId minCheck=0.04
+
+identifier wgEncodeGencodeTranscriptionSupportLevelVM27
+"Link together Gencode Transcription Support Level table with Attributes table"
+    mm39.wgEncodeGencodeTranscriptionSupportLevelVM27.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId minCheck=0.30
+
+identifier wgEncodeGencodeUniProtVM27
+"Link together Gencode UniProt Support table with Attributes table"
+    mm39.wgEncodeGencodeUniProtVM27.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId minCheck=0.35
+
+identifier wgEncodeGencodeAnnotationRemarkVM27
+"Link together Gencode Annotation Remark table with Attributes table"
+    mm39.wgEncodeGencodeAnnotationRemarkVM27.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId minCheck=0.10
+
+identifier wgEncodeGencodeEntrezGeneVM27
+"Link together Gencode UniProt Support table with Attributes table"
+    mm39.wgEncodeGencodeEntrezGeneVM27.transcriptId dupeOk
+    mm39.wgEncodeGencodeEntrezGeneVM27.transcriptId minCheck=0.35
+
+identifier wgEncodeGencodeExonSupportVM27
+"Link together Gencode Exon Support table with Attributes table"
+    mm39.wgEncodeGencodeExonSupportVM27.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM27.transcriptId minCheck=0.80
+
+# end Gencode VM27
+
 # begin Gencode V35 (2020 reorganization quick change)
 identifier gencodeAnnotV35
 "Link together Gencode Annotation Table with Attributes table"
     $gbd.gencodeAttrsV35.transcriptId
     $gbd.gencodeGeneSymbolV35.transcriptId 
     $gbd.gencodePdbV35.transcriptId 
     $gbd.gencodePubMedV35.transcriptId 
     $gbd.gencodeRefSeqV35.transcriptId 
     $gbd.gencodeTagV35.transcriptId 
     $gbd.gencodeRefSeqV35.transcriptId minCheck=0.9
     $gbd.gencodeTranscriptSourceV35.transcriptId minCheck=0.9
     $gbd.gencodeTranscriptSupportV35.transcriptId 
     $gbd.gencodeTranscriptionSupportLevelV35.transcriptId 
     $gbd.gencodeUniProtV35.transcriptId 
     $gbd.gencodeAnnotationRemarkV35.transcriptId  minCheck=0.9