Schema for xenoRefFlat
  Database: nomLeu2    Primary Table: xenoRefFlat    Row Count: 576,422   Data last updated: 2020-08-22
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type description
geneName AAK1varchar(255) Name of gene as it appears in genome browser.
name NM_014911varchar(255) Name of gene
chrom GL397430varchar(255) Reference sequence chromosome or scaffold
strand -char(1) + or - for strand
txStart 691616int(10) unsigned Transcription start position (or end position for minus strand item)
txEnd 691748int(10) unsigned Transcription end position (or start position for minus strand item)
cdsStart 691748int(10) unsigned Coding region start (or end position for minus strand item)
cdsEnd 691748int(10) unsigned Coding region end (or start position for minus strand item)
exonCount 2int(10) unsigned Number of exons
exonStarts 691616,691695,longblob Exon start positions (or end positions for minus strand item)
exonEnds 691682,691748,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)
      nomLeu2.xenoMrna.qName (via xenoRefFlat.name)
      nomLeu2.xenoRefGene.name (via xenoRefFlat.name)
      nomLeu2.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
AAK1NM_014911GL397430-6916166917486917486917482691616,691695,691682,691748,
GRO-GNM_001082342GL397302-569002856917675691447569176755690028,5690116,5690169,5691447,5691642,5690081,5690159,5690204,5691494,5691767,
gpatch11NM_001002393GL397288+16857866168601991685786616860199416857866,16859206,16859281,16860160,16857899,16859248,16859347,16860199,
TCEA2NM_198723GL397482+1456206147167514660751471508101456206,1456423,1466075,1467201,1468502,1469092,1469588,1469817,1471197,1471499,1456412,1456896,1466187,1467289,1468637,1469145,1469743,1469964,1471269,1471675,
ZNF37ANM_001324248GL397280+275392227540212754021275402112753922,2754021,
SLC25A25-AS1NR_033374GL397316+584842058485295848529584852915848420,5848529,
SLC25A25-AS1NR_033374GL397322-14233755142507281425072814250728514233755,14234961,14241510,14241533,14250698,14233821,14234976,14241522,14241550,14250728,
ube2e2NM_001094478GL397269+12064480121470271206448512146346912064480,12064593,12068675,12143271,12144862,12146248,12146372,12146492,12146994,12064539,12064638,12068725,12143404,12145010,12146346,12146475,12146510,12147027,
col1a1bNM_201478GL397261+256201362565543725620165256554373025620136,25625297,25629764,25630279,25630744,25633249,25633839,25634848,25635310,25635499,25636123,25637653,25638765,25639294,25 ...25620208,25625390,25629812,25630324,25630798,25633300,25633893,25634881,25635331,25635597,25636216,25637744,25638786,25639348,25 ...
Taf13NR_130639GL397313-4456928446830544683054468305114456928,4457250,4457779,4457867,4458191,4459196,4459298,4459406,4459437,4467013,4468260,4456970,4457322,4457809,4457884,4458200,4459216,4459313,4459421,4459622,4467090,4468305,

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