Schema for ucscRetroExpressed5
  Database: hg19    Primary Table: ucscRetroExpressed5    Row Count: 4,809   Data last updated: 2013-04-18
Format description: A gene prediction with some additional info.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
name AK021903.1-1varchar(255) values Name of gene (usually transcript_id from GTF)
chrom chr1varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 87348int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 89804int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 88161int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 88866int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 1int(10) unsigned range Number of exons
exonStarts 87348,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 89804,longblob   Exon end positions (or start positions for minus strand item)
score 0int(11) range score
name2 25.1varchar(255) values Alternate name (e.g. gene_id from GTF)
cdsStartStat cmplenum('none', 'unk', 'incmpl', 'cmpl') values Status of CDS start annotation (none, unknown, incomplete, or complete)
cdsEndStat cmplenum('none', 'unk', 'incmpl', 'cmpl') values Status of CDS end annotation (none, unknown, incomplete, or complete)
exonFrames 0,longblob   Reading frame of the start of the CDS region of the exon, in the direction of transcription (0,1,2), or -1 if there is no CDS region.

Connected Tables and Joining Fields
        hg19.ucscRetroAli5.qName (via ucscRetroExpressed5.name)
      hg19.ucscRetroInfo5.name (via ucscRetroExpressed5.name)
      hg19.ucscRetroOrtho5.name (via ucscRetroExpressed5.name)

Sample Rows
 
binnamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEndsscorename2cdsStartStatcdsEndStatexonFrames
585AK021903.1-1chr1-87348898048816188866187348,89804,025.1cmplcmpl0,
586AK130965.1-1chr1-2280622289862282912286541228062,228986,053.6cmplcmpl0,
586AK021903.1-3chr1-2353162363652354722355591235316,236365,016.5cmplcmpl0,
587AK302511.1-14chr1+3208203214643212033212781320820,321464,017.6cmplcmpl0,
587BC018677.1-4chr1-3212383222233216893217761321238,322223,019.4cmplcmpl0,
588AK312123.1-2chr1+4706954715684708854711491470695,471568,030.7cmplcmpl0,
590NM_015125.3-3chr1+6572256614026580506585151657225,661402,026.0cmplcmpl0,
590BC018677.1-5chr1+6674006683866678486679351667400,668386,019.4cmplcmpl0,
590NM_001743.4-7chr1+6742346752086746706747571674234,675208,019.4cmplcmpl0,
591NM_080386.3-1chr1+8084888099398087308097291808488,809939,0152.3cmplcmpl0,

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.