Schema for xenoRefFlat
  Database: felCat4    Primary Table: xenoRefFlat    Row Count: 527,169   Data last updated: 2020-08-21
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type description
geneName ABCC8varchar(255) Name of gene as it appears in genome browser.
name NM_001203015varchar(255) Name of gene
chrom chrA1varchar(255) Reference sequence chromosome or scaffold
strand -char(1) + or - for strand
txStart 71345807int(10) unsigned Transcription start position (or end position for minus strand item)
txEnd 71490372int(10) unsigned Transcription end position (or start position for minus strand item)
cdsStart 71345807int(10) unsigned Coding region start (or end position for minus strand item)
cdsEnd 71490372int(10) unsigned Coding region end (or start position for minus strand item)
exonCount 4int(10) unsigned Number of exons
exonStarts 71345807,71367587,71489982,...longblob Exon start positions (or end positions for minus strand item)
exonEnds 71345963,71367659,71490045,...longblob Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        felCat4.xenoMrna.qName (via xenoRefFlat.name)
      felCat4.xenoRefGene.name (via xenoRefFlat.name)
      felCat4.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
ABCC8NM_001203015chrA1-71345807714903727134580771490372471345807,71367587,71489982,71490300,71345963,71367659,71490045,71490372,
PTP4A1NM_001385267chrB2+714082927141600171408735714128652271408292,71410123,71410545,71412229,71412747,71413058,71413495,71413591,71413781,71413827,71413902,71414383,71414474,71414499,71 ...71408840,71410216,71410676,71412304,71413019,71413460,71413582,71413765,71413816,71413892,71414225,71414402,71414487,71414522,71 ...
npm1.LNM_001086291chrA1-2125854642125957122125854642125957122212585464,212595619,212585515,212595712,
atp4b.SNM_001086300chrA1-89256740892627728925674089262772289256740,89262640,89256896,89262772,
PCDH8NM_001098609chrA1+32118379321206663211837932120666332118379,32118711,32120327,32118690,32118753,32120666,
PHKBNM_001261044chrE2+328325983302444732832598330237862732832598,32837010,32899931,32904759,32905573,32905646,32907664,32919994,32968927,32969504,32976458,32977041,32982835,32983119,32 ...32832708,32837115,32900129,32904817,32905645,32905652,32907823,32920087,32968986,32969597,32976542,32977146,32982916,32983213,32 ...
mubNM_001259944chrB4+90335359903479759033535990347975590335359,90337038,90338124,90347810,90347903,90335476,90337110,90338187,90347894,90347975,
AGOS_AFL090WNM_210812chrD1+1410632641410637521410632641410637523141063264,141063487,141063707,141063354,141063513,141063752,
HEBP1NM_001075985chrB4-53823380538592265382338053859201453823380,53837355,53839300,53859123,53823546,53837535,53839439,53859226,
PMM1NM_001076083chrB4-15569826215570842715569859915570840113155698262,155698336,155698382,155698470,155698488,155698527,155699094,155700008,155703348,155703688,155703906,155705130,15570831 ...155698283,155698363,155698456,155698478,155698498,155698722,155699212,155700082,155703448,155703780,155703983,155705248,15570842 ...

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