Schema for xenoRefFlat
  Database: bosTau6    Primary Table: xenoRefFlat    Row Count: 331,614   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 tsc22d2.Svarchar(255) values Name of gene as it appears in genome browser.
name NM_001091281varchar(255) values Name of gene
chrom chr1varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 118613482int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 118657172int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 118613617int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 118657169int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 8int(10) unsigned range Number of exons
exonStarts 118613482,118613604,1186137...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 118613593,118613644,1186138...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        bosTau6.xenoMrna.qName (via xenoRefFlat.name)
      bosTau6.xenoRefGene.name (via xenoRefFlat.name)
      bosTau6.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
tsc22d2.SNM_001091281chr1-1186134821186571721186136171186571698118613482,118613604,118613716,118614818,118655294,118655360,118656485,118656905,118613593,118613644,118613878,118614851,118655321,118655408,118656698,118657172,
copz2NM_131507chr19+39081491391657663908149139089910739081491,39083192,39083952,39085240,39087233,39089862,39165732,39081560,39083258,39084043,39085321,39087284,39089910,39165766,
copz2NM_131507chr5-25839738258468272583973825846827625839738,25841900,25842088,25843464,25844666,25846767,25839786,25841930,25842167,25843520,25844756,25846827,
KITNM_001093772chr6+717963617191741771796419719153233571796361,71868543,71871913,71873268,71877588,71882315,71884640,71901099,71902898,71904292,71904485,71904889,71905026,71905080,71 ...71796486,71868813,71872195,71873405,71877757,71882505,71884755,71901214,71903080,71904395,71904616,71904994,71905028,71905189,71 ...
GANABNM_001278194chr29-416643114167976641665289416759003041664311,41664484,41664633,41664723,41664919,41665035,41665097,41665271,41665488,41666046,41666288,41666548,41666731,41666997,41 ...41664408,41664580,41664669,41664863,41664952,41665071,41665250,41665399,41665589,41666164,41666397,41666623,41666808,41667062,41 ...
Hif3aNM_001162950chr18+539975795402322553997579540202023453997579,53999195,54001316,54001868,54002479,54004266,54004541,54010490,54011636,54012875,54012950,54015138,54017084,54019361,54 ...53997772,53999341,54001401,54001983,54002685,54004372,54004689,54010589,54011816,54012890,54012980,54015412,54017162,54019373,54 ...
ptp4a1.SNM_001091785chr9+5123885159575123885159575512388,513691,514072,515042,515840,512493,513783,514204,515118,515957,
ptp4a3.LNM_001091784chr14-357886035855203578860358552063578860,3580650,3581264,3582231,3582547,3585415,3578978,3580727,3581393,3582234,3582637,3585520,
FGF17NM_001194186chr20+314789531944613147895319446133147895,3187418,3194398,3148001,3187526,3194461,
FGF17NM_001194186chr26-22375142227002852237514222379599422375142,22376145,22379494,22700249,22375317,22376253,22379599,22700285,

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