Schema for xenoRefFlat
  Database: dasNov3    Primary Table: xenoRefFlat    Row Count: 544,254   Data last updated: 2020-08-18
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type description
geneName LOC107521948varchar(255) Name of gene as it appears in genome browser.
name NM_001321689varchar(255) Name of gene
chrom JH570034varchar(255) Reference sequence chromosome or scaffold
strand +char(1) + or - for strand
txStart 45961int(10) unsigned Transcription start position (or end position for minus strand item)
txEnd 46081int(10) unsigned Transcription end position (or start position for minus strand item)
cdsStart 45961int(10) unsigned Coding region start (or end position for minus strand item)
cdsEnd 46081int(10) unsigned Coding region end (or start position for minus strand item)
exonCount 1int(10) unsigned Number of exons
exonStarts 45961,longblob Exon start positions (or end positions for minus strand item)
exonEnds 46081,longblob Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        dasNov3.xenoMrna.qName (via xenoRefFlat.name)
      dasNov3.xenoRefGene.name (via xenoRefFlat.name)
      dasNov3.xenoRefSeqAli.qName (via xenoRefFlat.name)
      hgFixed.gbCdnaInfo.acc (via xenoRefFlat.name)
      hgFixed.gbSeq.acc (via xenoRefFlat.name)
      hgFixed.imageClone.acc (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
LOC107521948NM_001321689JH570034+45961460814596146081145961,46081,
Zpr1NM_001137646JH569509-3310976332261633110393322616153310976,3311927,3313514,3314247,3314823,3315601,3316060,3316292,3316683,3316862,3320633,3321306,3321756,3322246,3322529,3311180,3311987,3313601,3314358,3314913,3315672,3316127,3316328,3316805,3316863,3320720,3321377,3321847,3322408,3322616,
VN2R644NM_001099586JH571227+11413297311141329731311413,28918,29302,11500,29245,29731,
VN2R644NM_001099586JH571227+14029222031402922203314029,21467,21857,14116,21794,22203,
WIZNM_021241JH564540+213654476521429427761721365,30067,38106,39609,39918,41035,41248,41479,42616,42851,42973,43179,43362,43855,43909,44672,44744,21634,30391,38656,39850,40002,41133,41284,41675,42793,42958,43145,43347,43554,43896,44054,44690,44765,
ACTR6NM_022496JH570141-1613598164683416140731646831151613598,1613737,1613801,1614045,1616461,1618050,1618162,1624257,1624416,1630765,1630917,1642682,1643822,1644401,1646763,1613619,1613758,1613909,1614203,1616600,1618161,1618223,1624336,1624515,1630826,1631049,1642806,1643891,1644519,1646834,
Rpl31NM_022506JH570017+170214917026631702165170264321702149,1702372,1702272,1702663,
Rpl31NM_022506JH570478+3943864029863943864029863394386,401076,402874,394493,401202,402986,
Olfr845NM_207145JH570746-2045712527320457125273620457,20555,124558,124697,124896,125012,20538,20635,124655,124805,124922,125273,
tbx5NM_001201500JH568323-8214948441918214948441916821494,822915,834126,835531,835566,844108,821554,823068,834270,835535,835686,844191,

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