Schema for xenoRefFlat
  Database: papAnu2    Primary Table: xenoRefFlat    Row Count: 362,759   Data last updated: 2020-08-22
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName Snrpcvarchar(255) values Name of gene as it appears in genome browser.
name NM_011432varchar(255) values Name of gene
chrom chr4varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 34036418int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 34051390int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 34036418int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 34051390int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 5int(10) unsigned range Number of exons
exonStarts 34036418,34041135,34045978,...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 34036462,34041242,34046068,...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)
      papAnu2.xenoMrna.qName (via xenoRefFlat.name)
      papAnu2.xenoRefGene.name (via xenoRefFlat.name)
      papAnu2.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
SnrpcNM_011432chr4+34036418340513903403641834051390534036418,34041135,34045978,34048401,34051262,34036462,34041242,34046068,34048503,34051390,
Sod1NM_011434chr3-14838946148480131483895514848013514838946,14840137,14840992,14843920,14847936,14839063,14840255,14841061,14844013,14848013,
hcn2NM_001124448chr19+3324413484343324413484346332441,335791,338340,341776,347789,348262,332600,335938,338560,341923,348028,348434,
parp3NM_001139954chr2-83339156833414088333915683341408783339156,83339984,83340280,83340424,83340956,83341285,83341330,83339306,83340011,83340394,83340508,83341067,83341309,83341408,
NUBPLNM_001201574chr7+883515638849723088425053884952531288351563,88351706,88425017,88462051,88482545,88486207,88495190,88495902,88496421,88496538,88496907,88497050,88351657,88351744,88425111,88462137,88482666,88486290,88495836,88496065,88496475,88496831,88496927,88497230,
atraidNM_001011316chr13+26253298262537102625329826253710226253298,26253629,26253388,26253710,
Pafah1b2NM_001357243chr11-970831389708609197085279970859621697083138,97083282,97083608,97083685,97083712,97083773,97083797,97084027,97084193,97084795,97085029,97085106,97085166,97085505,97 ...97083246,97083301,97083672,97083703,97083722,97083787,97083811,97084063,97084217,97084813,97085056,97085155,97085505,97085557,97 ...
Olr722NM_001000572AHZZ01120135-260120326012033260,364,1152,347,1111,1203,
Nkiras1NM_001316711chr2-1642302441642514651642331451642406367164230244,164230392,164230692,164230908,164233145,164240396,164251357,164230377,164230539,164230708,164230962,164233388,164240636,164251465,
Olr655NM_001000342AHZZ01120135-272119127211913272,364,1155,347,1071,1191,

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