Schema for xenoRefFlat
  Database: bosTau3    Primary Table: xenoRefFlat    Row Count: 445,898   Data last updated: 2020-08-20
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName TPD52L2varchar(255) values Name of gene as it appears in genome browser.
name NM_199363varchar(255) values Name of gene
chrom chr8varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 34482349int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 34482739int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 34482349int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 34482739int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 3int(10) unsigned range Number of exons
exonStarts 34482349,34482464,34482530,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 34482460,34482530,34482739,longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        bosTau3.xenoMrna.qName (via xenoRefFlat.name)
      bosTau3.xenoRefGene.name (via xenoRefFlat.name)
      bosTau3.xenoRefSeqAli.qName (via xenoRefFlat.name)
      hgFixed.gbCdnaInfo.acc (via xenoRefFlat.name)
      hgFixed.gbSeq.acc (via xenoRefFlat.name)
      hgFixed.imageClone.acc (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
TPD52L2NM_199363chr8-34482349344827393448234934482739334482349,34482464,34482530,34482460,34482530,34482739,
SPG7NM_199367chr20+41797540417983604179754041798360741797540,41797908,41797934,41797995,41798093,41798240,41798324,41797729,41797921,41797995,41798061,41798117,41798324,41798360,
Lzts1NM_199364chr8+621878756219759462187912621944691162187875,62189624,62190022,62193815,62194163,62195239,62195818,62195881,62196032,62196458,62197406,62188258,62190008,62190412,62194118,62194483,62195251,62195865,62195892,62196050,62196512,62197594,
TPD52L2NM_199363chr13-542771575429304754278601542929351554277157,54277528,54277823,54277865,54277957,54277976,54278066,54278595,54279182,54280262,54283857,54288510,54290397,54292916,54 ...54277187,54277589,54277855,54277874,54277966,54278055,54278214,54278643,54279231,54280304,54283959,54288659,54290543,54292938,54 ...
smpdl3aNM_001014338chr9-23476343234871572347634323487157623476343,23477743,23479400,23480170,23485909,23487001,23476481,23477756,23479574,23480308,23486055,23487157,
Zfp991NM_001083918chr18+571109365738598357181677573859831157110936,57181677,57189187,57236397,57236843,57249786,57250034,57250691,57369155,57373812,57385947,57110957,57181773,57189341,57236423,57236968,57249950,57250194,57250755,57369323,57373944,57385983,
Kctd18NM_001159864chr2-821450988216270682146139821627061082145098,82145200,82145232,82146139,82146350,82151022,82156769,82157956,82160449,82162567,82145146,82145219,82145255,82146239,82146522,82151125,82156864,82158150,82160661,82162706,
SEC61NM_001182267chr22+57615112576194725761511257619472457615112,57617228,57617762,57619328,57615289,57617378,57617858,57619472,
TSPY1NM_001197242chrUn.003.10448+160619131606190521606,1877,1735,1913,
CELF4NM_001353750chr7-95093435955533409555334095553340395093435,95474149,95553318,95093465,95474182,95553340,

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