Schema for xenoRefFlat
  Database: caeRem3    Primary Table: xenoRefFlat    Row Count: 229,260   Data last updated: 2020-08-18
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName TYRO3Pvarchar(255) values Name of gene as it appears in genome browser.
name NR_028510varchar(255) values Name of gene
chrom chrUnvarchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 64803851int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 64803980int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 64803980int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 64803980int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 1int(10) unsigned range Number of exons
exonStarts 64803851,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 64803980,longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        caeRem3.xenoMrna.qName (via xenoRefFlat.name)
      caeRem3.xenoRefGene.name (via xenoRefFlat.name)
      caeRem3.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
TYRO3PNR_028510chrUn+64803851648039806480398064803980164803851,64803980,
T12C22.9; T12C22_9NM_103563chrUn+43817757438192674381775743819267343817757,43817970,43819210,43817940,43818039,43819267,
PAB8NM_103863chrUn-96204845962068119620484596206811596204845,96205232,96205532,96205613,96206670,96205109,96205337,96205583,96205853,96206811,
nhr-195NM_001383363chrUn+88303421883045738830451388304573288303421,88304513,88303508,88304573,
NR_148863chrUn-1154131161154143031154143031154143035115413116,115413428,115413554,115413721,115414100,115413398,115413518,115413707,115414077,115414303,
sptl-1NM_001383768chrUn+1180056461180133891180056461180133894118005646,118008021,118009610,118013218,118005871,118008210,118009829,118013389,
ABCC9NM_005691chrUn-64255546642556936425554664255693164255546,64255693,
ABCC9NM_020297chrUn-64255546642556936425554664255693164255546,64255693,
dlk-1NM_001026274chrUn+64283683642886066428368364288606864283683,64286255,64286484,64286917,64287129,64287688,64287907,64288474,64283729,64286373,64286489,64287058,64287614,64287830,64288381,64288606,
NR_108450chrUn-47366072473675754736757547367575247366072,47367115,47367105,47367575,

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