Schema for wgEncodeGencodeCompV47lift37
  Database: hg19    Primary Table: wgEncodeGencodeCompV47lift37    Row Count: 366,510   Data last updated: 2024-10-17
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 ENST00000833856.1_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 10369int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 10582int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 10369int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 10369int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 2int(10) unsigned range Number of exons
exonStarts 10369,10465,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 10377,10582,longblob   Exon end positions (or start positions for minus strand item)
score 0int(11) range score
name2 DDX11L2varchar(255) values Alternate name (e.g. gene_id from GTF)
cdsStartStat noneenum('none', 'unk', 'incmpl', 'cmpl') values Status of CDS start annotation (none, unknown, incomplete, or complete)
cdsEndStat noneenum('none', 'unk', 'incmpl', 'cmpl') values Status of CDS end annotation (none, unknown, incomplete, or complete)
exonFrames -1,-1,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.wgEncodeGencodeAttrsV47lift37.transcriptId (via wgEncodeGencodeCompV47lift37.name)

Sample Rows
 
binnamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEndsscorename2cdsStartStatcdsEndStatexonFrames
585ENST00000833856.1_1chr1+10369105821036910369210369,10465,10377,10582,0DDX11L2nonenone-1,-1,
585ENST00000832824.1_1chr1+11120144131112011120411120,12009,12612,13452,11211,12227,12721,14413,0DDX11L16nonenone-1,-1,-1,-1,
585ENST00000832825.1_1chr1+11124144051112411124411124,12009,12612,13402,11211,12227,12721,14405,0DDX11L16nonenone-1,-1,-1,-1,
585ENST00000832826.1_1chr1+11409144131140911409411409,12009,12594,13482,11671,12227,12721,14413,0DDX11L16nonenone-1,-1,-1,-1,
585ENST00000832827.1_1chr1+11410144131141011410411410,12009,12612,13482,11671,12227,12721,14413,0DDX11L16nonenone-1,-1,-1,-1,
585ENST00000832828.1_1chr1+11425144091142511425411425,12009,12612,13220,11671,12227,12721,14409,0DDX11L16nonenone-1,-1,-1,-1,
585ENST00000832829.1_1chr1+11769144161176911769411769,12009,12612,13482,11844,12227,12721,14416,0DDX11L16nonenone-1,-1,-1,-1,
585ENST00000832830.1_1chr1+11818144131181811818411818,12009,12612,13482,11844,12227,12697,14413,0DDX11L16nonenone-1,-1,-1,-1,
585ENST00000832837.1_1chr1+11822144061182211822411822,12009,12594,13220,11844,12227,12721,14406,0DDX11L16nonenone-1,-1,-1,-1,
585ENST00000832836.1_1chr1+11823144091182311823311823,12009,13482,11844,12697,14409,0DDX11L16nonenone-1,-1,-1,

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