Schema for xenoRefFlat
  Database: ornAna2    Primary Table: xenoRefFlat    Row Count: 710,922   Data last updated: 2020-08-19
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type description
geneName PRTFDC1varchar(255) Name of gene as it appears in genome browser.
name NM_020200varchar(255) Name of gene
chrom chr6varchar(255) Reference sequence chromosome or scaffold
strand -char(1) + or - for strand
txStart 8427412int(10) unsigned Transcription start position (or end position for minus strand item)
txEnd 8435673int(10) unsigned Transcription end position (or start position for minus strand item)
cdsStart 8427412int(10) unsigned Coding region start (or end position for minus strand item)
cdsEnd 8435673int(10) unsigned Coding region end (or start position for minus strand item)
exonCount 5int(10) unsigned Number of exons
exonStarts 8427412,8427957,8432566,843...longblob Exon start positions (or end positions for minus strand item)
exonEnds 8427484,8428005,8432632,843...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)
      ornAna2.xenoRefGene.name (via xenoRefFlat.name)
      ornAna2.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
PRTFDC1NM_020200chr6-842741284356738427412843567358427412,8427957,8432566,8435321,8435490,8427484,8428005,8432632,8435324,8435673,
PRTFDC1NM_020200chrUn_DS181150v1-6157466763746187486763749615746,616814,616925,618748,621173,621611,622166,634279,676326,615818,616910,616999,618820,621179,621657,622246,634346,676374,
MIR125BNR_107881chrUn_DS181672v1+3306153307023307023307021330615,330702,
OPA1NM_001192961chr7-26035334260591502603533426059150726035334,26037209,26037706,26045843,26049797,26058336,26058856,26035424,26037314,26037760,26045954,26049866,26058429,26059150,
Rpl7NM_001100534chrUn_DS180943v1-5282795300225282795300222528279,529884,528372,530022,
Rpl7NM_001100534chrUn_DS181839v1+896795158967951548967,9102,9132,9308,9016,9125,9213,9515,
PSMC6NM_002806chrUn_DS186410v1-109212381610989238161410921,10968,12507,13681,13881,14775,15184,15390,16159,17486,17946,23335,23614,23738,10942,11108,12579,13760,14003,14840,15305,15450,16249,17601,18014,23388,23654,23816,
ShhNM_009170chrUn_DS199518v1-235876982358769832358,2565,7425,2427,2739,7698,
F2rl2NM_010170chr1-15558630155594881555863015559488115558630,15559488,
F2rNM_010169chrUn_DS181368v1+2807112810562807112810562280711,281041,280924,281056,

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