c9e0b8fd8911a369f435237837516a6f378297e8
markd
  Thu Dec 29 16:15:37 2022 -0800
import of GENCODE VM32 pre-release

diff --git src/hg/makeDb/schema/all.joiner src/hg/makeDb/schema/all.joiner
index ddc8f8c..27b41b3 100644
--- src/hg/makeDb/schema/all.joiner
+++ src/hg/makeDb/schema/all.joiner
@@ -7358,30 +7358,124 @@
     mm39.wgEncodeGencodeAnnotationRemarkVM31.transcriptId dupeOk
     mm39.wgEncodeGencodeAttrsVM31.transcriptId minCheck=0.10
 
 identifier wgEncodeGencodeEntrezGeneVM31
 "Link together Gencode UniProt Support table with Attributes table"
     mm39.wgEncodeGencodeEntrezGeneVM31.transcriptId dupeOk
     mm39.wgEncodeGencodeEntrezGeneVM31.transcriptId minCheck=0.35
 
 identifier wgEncodeGencodeExonSupportVM31
 "Link together Gencode Exon Support table with Attributes table"
     mm39.wgEncodeGencodeExonSupportVM31.transcriptId dupeOk
     mm39.wgEncodeGencodeAttrsVM31.transcriptId minCheck=0.80
 
 # end Gencode VM31
 
+# begin Gencode VM32
+
+# gencode genePred tables with no associations
+# wgEncodeGencodePolyaVM32
+
+# gencode genePred tables with joining through wgEncodeGencodeAttrsVM32
+identifier wgEncodeGencodeBasicAttrsVM32
+"Link together Gencode Basic Table with Attributes table"
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId
+    mm39.wgEncodeGencodeBasicVM32.name
+
+identifier wgEncodeGencodeCompAttrsVM32
+"Link together Gencode Comprehensive Table with Attributes table"
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId
+    mm39.wgEncodeGencodeCompVM32.name
+
+identifier wgEncodeGencodePseudoGeneAttrsVM32
+"Link together Gencode PseudoGene Table with Attributes table"
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId
+    mm39.wgEncodeGencodePseudoGeneVM32.name
+
+# gencode association tables (joined through wgEncodeGencodeAttrsVM32)
+identifier wgEncodeGencodeGeneSourceVM32
+"Link together Gencode Gene Source table with Attributes table"
+    mm39.wgEncodeGencodeGeneSourceVM32.geneId
+    mm39.wgEncodeGencodeAttrsVM32.geneId
+
+identifier wgEncodeGencodeGeneSymbolVM32
+"Link together Gencode gene symbol table with Attributes table"
+    mm39.wgEncodeGencodeGeneSymbolVM32.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId minCheck=0.20
+
+identifier wgEncodeGencodePdbVM32
+"Link together Gencode Pdb table with Attributes table"
+    mm39.wgEncodeGencodePdbVM32.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId minCheck=0.015
+
+identifier wgEncodeGencodePubMedVM32
+"Link together Gencode Pubmed table with Attributes table"
+    mm39.wgEncodeGencodePubMedVM32.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId  minCheck=0.63
+
+identifier wgEncodeGencodeRefSeqVM32
+"Link together Gencode RefSeq table with Attributes table"
+    mm39.wgEncodeGencodeRefSeqVM32.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId minCheck=0.05
+
+identifier wgEncodeGencodeRefSeqToRefGeneVM32
+"Link together Gencode RefSeq table with refGene track"
+    mm39.wgEncodeGencodeRefSeqVM32.rnaAcc dupeOk chopAfter=.
+    mm39.refGene.name minCheck=0.77
+
+identifier wgEncodeGencodeTagVM32
+"Link together Gencode Tag table with Attributes table"
+    mm39.wgEncodeGencodeTagVM32.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId minCheck=0.36
+
+identifier wgEncodeGencodeTranscriptSourceVM32
+"Link together Gencode Transcript Source table with Attributes table"
+    mm39.wgEncodeGencodeTranscriptSourceVM32.transcriptId
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId
+
+identifier wgEncodeGencodeTranscriptSupportVM32
+"Link together Gencode Transcript Support table with Attributes table"
+    mm39.wgEncodeGencodeTranscriptSupportVM32.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId minCheck=0.04
+
+identifier wgEncodeGencodeTranscriptionSupportLevelVM32
+"Link together Gencode Transcription Support Level table with Attributes table"
+    mm39.wgEncodeGencodeTranscriptionSupportLevelVM32.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId minCheck=0.30
+
+identifier wgEncodeGencodeUniProtVM32
+"Link together Gencode UniProt Support table with Attributes table"
+    mm39.wgEncodeGencodeUniProtVM32.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId minCheck=0.35
+
+identifier wgEncodeGencodeAnnotationRemarkVM32
+"Link together Gencode Annotation Remark table with Attributes table"
+    mm39.wgEncodeGencodeAnnotationRemarkVM32.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId minCheck=0.10
+
+identifier wgEncodeGencodeEntrezGeneVM32
+"Link together Gencode UniProt Support table with Attributes table"
+    mm39.wgEncodeGencodeEntrezGeneVM32.transcriptId dupeOk
+    mm39.wgEncodeGencodeEntrezGeneVM32.transcriptId minCheck=0.35
+
+identifier wgEncodeGencodeExonSupportVM32
+"Link together Gencode Exon Support table with Attributes table"
+    mm39.wgEncodeGencodeExonSupportVM32.transcriptId dupeOk
+    mm39.wgEncodeGencodeAttrsVM32.transcriptId minCheck=0.80
+
+# end Gencode VM32
+
 identifier wgEncodeGencodeClassesV3Hg19
 "Link together Gencode gene model (Known) and class for July 2009 Data Version"
     hg19.wgEncodeGencodeClassesV3.name
     hg19.wgEncodeGencodeAutoV3.name unique
     hg19.wgEncodeGencodeManualV3.name unique
     hg19.wgEncodeGencodePolyaV3.name unique
 
 identifier acemblyName dependency
 "Link together Acembly gene model structure and peptide."
     $hg,$mm.acembly.name
     $hg,!hg17,$mm.acemblyPep.name unique minCheck=0.90
     hg17.acemblyPep.name unique minCheck=0.63
     $hg,$mm.acemblyClass.name full unique
 
 identifier ECgeneName dependency