Schema for xenoRefFlat
  Database: panTro4    Primary Table: xenoRefFlat    Row Count: 343,020   Data last updated: 2020-08-22
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName FAM86EPvarchar(255) values Name of gene as it appears in genome browser.
name NR_130742varchar(255) values Name of gene
chrom chr4varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 3991451int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 4002856int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 4002856int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 4002856int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 4int(10) unsigned range Number of exons
exonStarts 3991451,3991718,4000816,400...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 3991518,3993059,4000902,400...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        hgFixed.gbCdnaInfo.acc (via xenoRefFlat.name)
      hgFixed.gbSeq.acc (via xenoRefFlat.name)
      hgFixed.imageClone.acc (via xenoRefFlat.name)
      panTro4.xenoMrna.qName (via xenoRefFlat.name)
      panTro4.xenoRefGene.name (via xenoRefFlat.name)
      panTro4.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
FAM86EPNR_130742chr4-399145140028564002856400285643991451,3991718,4000816,4002785,3991518,3993059,4000902,4002856,
FAM86EPNR_130742chr3-76775894767896687678966876789668676775894,76776159,76777189,76785393,76787366,76789572,76775961,76777085,76777597,76785478,76787429,76789668,
Gm10310NM_001370880chr12+34018714340194953401871434019495334018714,34018799,34019089,34018798,34019089,34019495,
LINC01979NR_110850chr17-790844357909594179095941790959411179084435,79085350,79085632,79085976,79087093,79088854,79090650,79091195,79094231,79094918,79095602,79084577,79085555,79085706,79086912,79088647,79089079,79090802,79091349,79094289,79095524,79095941,
TYRO3PNR_028510chr15-73812903738137677381376773813767173812903,73813767,
USP17L6PNR_027279chr4_GL389982_random+8027608039558039558039551802760,803955,
PPIENR_036543chr1+400230684004081940040819400408191340023068,40024384,40025585,40026114,40027428,40028036,40029588,40033092,40037097,40037474,40038413,40039207,40040105,40023147,40024483,40025629,40026141,40027510,40028137,40029712,40033278,40037240,40038274,40038447,40040021,40040819,
adpgkNM_001079965chr15-70296316703190817029631670319081870296316,70296475,70296688,70299547,70302028,70304382,70315764,70318856,70296442,70296670,70296853,70299607,70302142,70304502,70315821,70319081,
Pde4bNM_001177981chr1+669611236698111766961399669792152166961123,66961266,66961350,66962079,66968179,66969731,66969969,66972228,66974261,66974508,66975352,66978849,66979554,66979707,66 ...66961213,66961286,66961447,66962173,66968358,66969830,66970134,66972327,66974416,66974631,66975535,66979385,66979684,66979798,66 ...
Hbp1NM_153198chr7+10865588210868939110865591710868717620108655882,108666756,108669260,108672690,108673242,108673457,108676165,108677046,108682709,108682802,108687033,108688466,10868875 ...108655932,108666940,108669486,108672835,108673354,108673570,108676322,108677191,108682797,108683027,108687176,108688728,10868883 ...

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