26aac34f999f66703d253baef1ff5f084c2d5007
lrnassar
  Tue Apr 19 17:12:41 2022 -0700
EVA SNP3 track now QA ready, refs #29031

diff --git src/hg/makeDb/trackDb/trackDb.ra src/hg/makeDb/trackDb/trackDb.ra
index b944d44..165e189 100644
--- src/hg/makeDb/trackDb/trackDb.ra
+++ src/hg/makeDb/trackDb/trackDb.ra
@@ -3026,15 +3026,39 @@
     parent tanDups on
     shortLabel Gap Overlaps
     longLabel Paired exactly identical sequence on each side of a gap
 
     track tandemDups
     parent tanDups on
     shortLabel Tandem Dups
     longLabel Paired exactly identical sequence survey over entire genome assembly
 
 track tantan
 shortLabel tantan Repeats
 longLabel Repeats by tantan
 group varRep
 visibility hide
 type bed 3 .
+
+track evaSnp
+shortLabel EVA SNP Release 3
+longLabel Short Genetic Variants from European Variant Archive Release 3
+type bigBed 9 +
+group varRep
+visibility pack
+itemRgb on
+mouseOver $ucscClass $aaChange
+bigDataUrl /gbdb/$D/bbi/evaSnp.bb
+url https://www.ebi.ac.uk/eva/?variant&accessionID=$$
+filterValues.varClass deletion|Deletion,delins|Deletion-Insertion,insertion|Insertion,multipleNucleotideSubstitution|Multiple nucleotide substitution,substitution|Substitution,sequence alteration|Sequence alteration
+filterLabel.varClass Variant class from EVA SO term
+filterLabel.ucscClass Functional effect per UCSC Variant Annotation
+filterValues.ucscClass downstream_gene_variant|Downstream gene variant,upstream_gene_variant|Upstream gene variant,intron_variant|Intron variant,NMD_transcript_variant|Nonsense-mediated mRNA decay (NMD) variant,5_prime_UTR_variant|5 prime UTR variant,3_prime_UTR_variant|3 prime UTR variant,missense_variant|Missense variant,synonymous_variant|Synonymous variant,non_coding_transcript_exon_variant|Non-coding transcript exon variant,no_sequence_alteration|No sequence alteration,splice_region_variant|Splice region variant,frameshift_variant|Frameshift variant,stop_gained|Stop gained,splice_acceptor_variant|Splice acceptor variant,inframe_deletion|Inframe deletion,inframe_insertion|Inframe insertion,splice_donor_variant|Splice donor variant,coding_sequence_variant|Coding sequence variant,initiator_codon_variant|Initiator codon variant,stop_lost|Stop lost,stop_retained_variant|Stop retained variant,intergenic_variant|Intergenic variant
+filterType.ucscClass multipleListOnlyOr
+filterValues.itemRgb 255,,0,,0|Protein-altering and splice variants,0,,128,,0|Synonymous variants,0,,0,,255|Non-coding transcripts or UTR variants,0,,0,,0|Intergenic and intronic variants
+filterLabel.itemRgb General variant types by color grouping
+pennantIcon New red ../goldenPath/newsarch.html#XX "Released Xxx. xx, 2022"
+
+searchTable evaSnp
+searchType bigBed
+searchMethod exact
+padding 20