Schema for xenoRefFlat
  Database: calJac4    Primary Table: xenoRefFlat    Row Count: 256,337   Data last updated: 2020-09-21
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName LINC00375varchar(255) values Name of gene as it appears in genome browser.
name NR_126383varchar(255) values Name of gene
chrom chr1varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 305304int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 308245int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 308245int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 308245int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 2int(10) unsigned range Number of exons
exonStarts 305304,308212,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 305434,308245,longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        calJac4.xenoMrna.qName (via xenoRefFlat.name)
      calJac4.xenoRefGene.name (via xenoRefFlat.name)
      calJac4.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
LINC00375NR_126383chr1-3053043082453082453082452305304,308212,305434,308245,
LOC100383421NM_001176073chr1-3823543832833823543832833382354,382621,382884,382399,382747,383283,
LINC00351NR_046989chr1+8688118853588853588853583868811,882389,885259,868939,882477,885358,
hnrnpa1aNR_155546chr1+8708268716848716848716844870826,871558,871635,871666,871366,871621,871656,871684,
SLITRK6NM_032229chr1-114778811545011148947115147041147788,1148826,1149709,1154003,1148802,1149709,1151501,1154501,
Slitrk6NM_175499chr1-114778811545031148947115147091147788,1148075,1148208,1148437,1148549,1148635,1148865,1149705,1154204,1148044,1148175,1148221,1148448,1148593,1148783,1149697,1151505,1154503,
Slitrk6NM_001106057chr1-1147788115450411489471151470131147788,1147991,1148238,1148333,1148437,1148549,1148634,1148826,1149704,1150621,1154077,1154207,1154369,1147956,1148164,1148256,1148345,1148536,1148561,1148783,1149694,1150618,1151500,1154170,1154346,1154504,
SLITRK6NM_001257070chr1-114894711514701148947115147011148947,1151470,
slitrk6NM_001305553chr1-114895011513861148950115138661148950,1149121,1149457,1149877,1150666,1151320,1149094,1149223,1149661,1150234,1151206,1151386,
LINC00430NR_132371chr1+214367221723182172318217231822143672,2172167,2143724,2172318,

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