From 04a15da49bbf1325a32de70db1eec13257d27882 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Andreas=20Kusalananda=20K=C3=A4h=C3=A4ri?= <ak4@sanger.ac.uk> Date: Wed, 17 Feb 2010 14:08:09 +0000 Subject: [PATCH] New attribs from Ensembl Genomes (Uma). Folded some older comments for readability. --- misc-scripts/attribute_types/attrib_type.txt | 20 +++++++++++++++----- 1 file changed, 15 insertions(+), 5 deletions(-) diff --git a/misc-scripts/attribute_types/attrib_type.txt b/misc-scripts/attribute_types/attrib_type.txt index 3c4c072621..d449b9ca2c 100644 --- a/misc-scripts/attribute_types/attrib_type.txt +++ b/misc-scripts/attribute_types/attrib_type.txt @@ -308,19 +308,29 @@ 184 TRGeneCount TR_gene Number of TR Genes 185 TRPsCount TR_pseudo Number of TR Pseudogenes -# attribute that shows if a supporting evidence was also used to build a Vega gene model +# attribute that shows if a supporting evidence was also used to build a +# Vega gene model 186 tp_ott_support otter protein transcript support Evidence ID that was used as supporting feature for building a gene in Vega 187 td_ott_support otter dna transcript support Evidence ID that was used as supporting feature for building a gene in Vega 188 ep_ott_support otter protein exon support Evidence ID that was used as supporting feature for building a gene in Vega 189 ed_ott_support otter dna exon support Evidence ID that was used as supporting feature for building a gene in Vega -# Attributes like ie split_tscript incons_strands incons_phases is_folded unwanted_evidence -# exon_too_long contains_stops borked_coords low_complex evi_coverage are added by BlastMiniGenewise in the build process. -# They can be deleted out of transcript_attrib and attrib_type table +# Attributes like split_tscript, incons_strands, incons_phases, +# is_folded, unwanted_evidence, exon_too_long, contains_stops, +# borked_coords, low_complex, and evi_coverage are added by +# BlastMiniGenewise in the build process. They can be deleted out of +# transcript_attrib and attrib_type table 190 GeneNo_lincRNA lincRNA Gene Count Number of lincRNA Genes -# StopGained and StopLost are transcript attributes. +# StopGained and StopLost are transcript attributes. 191 StopGained SNP causes stop codon to be gained This transcript has a variant that causes a stop codon to be gained in at least 10 percent of a HapMap population 192 StopLost SNP causes stop codon to be lost This transcript has a variant that causes a stop codon to be lost in at least 10 percent of a HapMap population +# For Ensembl Genomes dictyBase (2010-02-16). +# (code 193 should have a trailing '_' as it is auto-generated) +193 GeneNo_class_I_ class_I_RNA Gene Count Number of class_I_RNA Genes +194 GeneNo_SRP_RNA SRP_RNA Gene Count Number of SRP_RNA Genes +195 GeneNo_class_II class_II_RNA Gene Count Number of class_II_RNA Genes +196 GeneNo_P_RNA RNase_P_RNA Gene Count Number of RNase_P_RNA Genes +197 GeneNo_RNase_MR RNase_MRP_RNA Gene Count Number of RNase_MRP_RNA Genes -- GitLab