Schema for xenoRefFlat
  Database: galVar1    Primary Table: xenoRefFlat    Row Count: 568,133   Data last updated: 2020-08-19
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type description
geneName S100A2varchar(255) Name of gene as it appears in genome browser.
name NM_001034367varchar(255) Name of gene
chrom NW_007726445v1varchar(255) Reference sequence chromosome or scaffold
strand +char(1) + or - for strand
txStart 356393int(10) unsigned Transcription start position (or end position for minus strand item)
txEnd 357750int(10) unsigned Transcription end position (or start position for minus strand item)
cdsStart 356421int(10) unsigned Coding region start (or end position for minus strand item)
cdsEnd 357669int(10) unsigned Coding region end (or start position for minus strand item)
exonCount 3int(10) unsigned Number of exons
exonStarts 356393,357516,357735,longblob Exon start positions (or end positions for minus strand item)
exonEnds 356562,357669,357750,longblob Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        galVar1.xenoRefGene.name (via xenoRefFlat.name)
      galVar1.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
S100A2NM_001034367NW_007726445v1+3563933577503564213576693356393,357516,357735,356562,357669,357750,
SUOXNM_001034366NW_007727569v1+18591212861859120789818591,18949,19378,20848,20874,21047,21135,21212,18637,19118,20807,20861,20910,21125,21160,21286,
SUOXNM_001034366NW_007729985v1+9203067920245620920,966,981,986,1054,1074,1259,1353,1520,1579,1651,1770,1805,1827,2080,2233,2261,2764,2967,3022,947,974,986,997,1064,1083,1334,1420,1579,1651,1717,1799,1811,2076,2215,2242,2456,2907,3012,3067,
LOC102601057NM_001288110NW_007728023v1+1589831592291589831592291158983,159229,
LOC102601057NM_001288110NW_007730617v1+69397698856939769885269397,69843,69667,69885,
LOC102601823NM_001288105NW_007726275v1-8941689036318941689036315894168,898877,901185,901816,903469,894210,898990,901297,901894,903631,
LOC102577756NM_001288095NW_007732800v1+1110811122061110811122061111081,112206,
MICANM_001177519NW_007732366v1-1196471211781196471211786119647,120526,120644,120960,121039,121136,119774,120616,120678,120987,121132,121178,
ORNANAV1R3067NM_001253459NW_007745175v1+10674111331067411133210674,10962,10764,11133,
ORNANAV1R3067NM_001253459NW_007737244v1-30344305753034430575230344,30536,30416,30575,

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