Schema for xenoRefFlat
  Database: ponAbe3    Primary Table: xenoRefFlat    Row Count: 228,415   Data last updated: 2018-10-26
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName PGBD2varchar(255) values Name of gene as it appears in genome browser.
name NM_001258110varchar(255) values Name of gene
chrom chr1varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 2151int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 17868int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 2722int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 7420int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 4int(10) unsigned range Number of exons
exonStarts 2151,2541,7403,17773,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 2478,4484,7467,17868,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)
      ponAbe3.xenoRefGene.name (via xenoRefFlat.name)
      ponAbe3.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
PGBD2NM_001258110chr1-2151178682722742042151,2541,7403,17773,2478,4484,7467,17868,
TMEM130NM_001134451chr7-219779622205472199342222038792197796,2198470,2198844,2199869,2202724,2206553,2207330,2211430,2220302,2198165,2198801,2199495,2199982,2202927,2206638,2207497,2211590,2220547,
PDE1ANM_001258313chr2B-683392996860298668339659686025681468339299,68355615,68356187,68358698,68371053,68371307,68375534,68387835,68393984,68394993,68398398,68404069,68428988,68602515,68339703,68355803,68356308,68358780,68371174,68371409,68375660,68387936,68394125,68395110,68398465,68404252,68429102,68602986,
TP53I11NM_001258321chr11+217476142176687421760907217643611121747614,21759993,21760873,21761632,21761889,21762341,21763584,21764227,21765004,21765261,21766529,21748046,21760035,21761036,21761691,21761938,21762438,21763686,21764893,21765235,21766493,21766874,
Hdhd2NM_001361227chr18-421955574222467342196868422246621242195557,42195912,42196245,42196446,42196598,42196723,42196857,42201151,42203307,42218453,42222712,42224561,42195776,42196061,42196354,42196463,42196698,42196826,42196975,42201212,42203524,42218541,42222918,42224673,
CDK20NM_001361221chr9+66184177661920996618449866191570866184177,66184909,66187655,66188093,66188360,66189071,66189641,66191372,66184573,66185023,66187844,66188215,66188423,66189195,66189797,66192099,
DNMT3ANM_175629chr2A+837290378383885983757563838375382683729037,83757386,83771226,83788957,83796120,83796578,83823466,83823966,83824558,83824943,83825410,83825655,83826388,83827074,83 ...83729198,83757635,83771331,83789228,83796164,83796725,83823682,83824125,83824666,83825100,83825560,83825700,83826468,83827187,83 ...
Dlec1NM_177117chr3-10381943110389387410381943110389387437103819431,103819620,103820039,103821216,103823869,103824198,103824534,103824715,103824920,103825220,103826754,103827351,10382943 ...103819527,103819751,103820193,103821378,103824004,103824282,103824592,103824835,103824989,103825357,103826829,103827466,10382958 ...
ZNF692NM_001261269chr1+663667455266381745211266366,66831,67190,68138,68278,68363,68747,69058,69235,70668,73950,74214,66560,66863,67454,68187,68314,68410,68969,69136,69314,70783,74050,74552,
NPM1NM_001035441chr5+16907742016909764016907751916909734311169077420,169079618,169080879,169081276,169082266,169082470,169089822,169090465,169092179,169094498,169097304,169077577,169079698,169080999,169081370,169082373,169082488,169089840,169090552,169092281,169094573,169097640,

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