Schema for xenoRefFlat
  Database: panPan2    Primary Table: xenoRefFlat    Row Count: 240,975   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 LOC101929415varchar(255) values Name of gene as it appears in genome browser.
name NR_125813varchar(255) values Name of gene
chrom chr8varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 50239022int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 50340887int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 50340887int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 50340887int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 3int(10) unsigned range Number of exons
exonStarts 50239022,50289279,50340814,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 50239715,50289412,50340887,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)
      panPan2.xenoRefGene.name (via xenoRefFlat.name)
      panPan2.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
LOC101929415NR_125813chr8+50239022503408875034088750340887350239022,50289279,50340814,50239715,50289412,50340887,
TRIM38NM_001290237chr6+26458062264751472645806226475126426458062,26463328,26464623,26474601,26458306,26463561,26464728,26475147,
RBMY1A1NM_001320944chrX-1362690911362739891362690911362739897136269091,136269990,136271079,136272516,136272600,136273579,136273881,136269155,136270074,136271226,136272600,136272655,136273663,136273989,
CEP85NM_001319944chr1+265627902660785226568333266063361426562790,26568315,26572695,26583619,26586071,26586616,26588077,26597540,26598517,26600071,26601076,26604003,26605576,26606178,26562901,26568388,26572848,26584314,26586205,26586734,26588263,26597693,26598672,26600165,26601127,26604111,26605802,26607852,
dstNM_001164955chr1+400595524009078740059552400907871140059552,40061987,40064697,40065869,40069327,40070132,40071593,40071762,40072820,40079543,40090701,40059630,40062149,40064793,40065989,40069381,40070195,40071741,40071764,40072922,40079661,40090787,
PURANM_001009447chr5+1415990071415998781415990071415997624141599007,141599090,141599708,141599829,141599085,141599670,141599774,141599878,
sin3bNM_001078821chr19+172962541734550917296254173455092017296254,17296539,17298229,17309211,17314340,17320411,17321532,17329708,17329783,17331026,17333335,17334297,17334503,17337388,17 ...17296275,17296635,17298394,17309346,17314484,17320501,17321652,17329777,17329915,17331146,17333571,17334481,17334506,17337586,17 ...
LOC693063NM_001044051chr14+66818460668359246681846066835924666818460,66828190,66830127,66834115,66835003,66835858,66818692,66828243,66830235,66834173,66835101,66835924,
TINAGNM_001278025chr6+55517891555810045551789155581004555517891,55534330,55538442,55545576,55580911,55517993,55534427,55538582,55545633,55581004,
Slc22a26NM_146232chr11-61868570619350966186861861935088661868570,61869587,61870311,61889605,61923066,61934687,61868651,61869746,61870347,61889734,61923117,61935096,

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