Schema for refFlat
  Database: criGri1    Primary Table: refFlat    Row Count: 555   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 Tp53varchar(255) values Name of gene as it appears in genome browser.
name NM_001243976varchar(255) values Name of gene
chrom KE380061varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 1111782int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 1123796int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 1112317int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 1117365int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 11int(10) unsigned range Number of exons
exonStarts 1111782,1112971,1114137,111...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 1112399,1113078,1114211,111...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        hgFixed.refLink.name (via refFlat.geneName)
      criGri1.mrnaOrientInfo.name (via refFlat.name)
      criGri1.refGene.name (via refFlat.name)
      criGri1.refSeqAli.qName (via refFlat.name)
      hgFixed.gbCdnaInfo.acc (via refFlat.name)
      hgFixed.gbSeq.acc (via refFlat.name)
      hgFixed.imageClone.acc (via refFlat.name)
      hgFixed.refLink.mrnaAcc (via refFlat.name)
      hgFixed.refSeqStatus.mrnaAcc (via refFlat.name)
      hgFixed.refSeqSummary.mrnaAcc (via refFlat.name)
      knownGeneV39.kgXref.refseq (via refFlat.name)
      knownGeneV39.knownToRefSeq.value (via refFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
Tp53NM_001243976KE380061-1111782112379611123171117365111111782,1112971,1114137,1114301,1114647,1115404,1115598,1116613,1116989,1117291,1123705,1112399,1113078,1114211,1114438,1114757,1115517,1115782,1116892,1117011,1117393,1123796,
Eef1a1NM_001244402KE377441-1745851768661748541768308174585,175067,175389,175550,175766,176000,176394,176686,174979,175302,175492,175682,175917,176154,176575,176866,
Ap3m1NM_001244405KE379574+1238767125801512462231256169101238767,1246220,1246309,1247181,1251249,1252249,1253191,1254261,1255501,1256068,1239031,1246261,1246511,1247353,1251387,1252335,1253325,1254469,1255646,1258015,
FancgNM_001244394KE380251+829509148483088912861482950,83377,84576,85112,86757,87040,87255,87712,88985,89224,89654,90378,90936,91192,83184,83471,84708,85315,86893,87171,87402,87873,89052,89511,89701,90534,91054,91484,
Rps2NM_001244043KE376344+8422108439678422138439616842210,842466,842662,843003,843562,843880,842390,842556,842770,843337,843654,843967,
Slc1a4NM_001246782KE381985-4544484793544544484793548454448,457057,458720,459238,462014,465064,466934,478827,454683,457192,458915,459472,462181,465127,466977,479354,
Hdac5NM_001246781KE383081-1176356121170911763561211709261176356,1176482,1176784,1177094,1177583,1177863,1178202,1179357,1179568,1179975,1180242,1180639,1181036,1181845,1182644,1183153, ...1176396,1176648,1176869,1177228,1177702,1177961,1178322,1179445,1179624,1180083,1180292,1180760,1181170,1182011,1182923,1183365, ...
Prdx2NM_001246780KE379688-4653974686294654614681226465397,466767,467044,467774,468019,468612,465547,466898,467140,467929,468124,468629,
GfusNM_001246779KE378214+35402935949835475635921811354029,354745,355254,356807,357021,357254,357514,357822,358021,358323,359162,354066,354902,355369,356936,357095,357388,357579,357889,358101,358423,359498,
B4galt5NM_001246778KE376883+7776757908547776757907758777675,782353,784652,785592,786516,787173,789629,790627,777812,782467,784777,785709,786704,787296,789731,790854,

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