Schema for xenoRefFlat
  Database: panTro3    Primary Table: xenoRefFlat    Row Count: 343,294   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 IGFLR1varchar(255) values Name of gene as it appears in genome browser.
name NR_144341varchar(255) values Name of gene
chrom chr14varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 64323163int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 64323480int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 64323480int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 64323480int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 3int(10) unsigned range Number of exons
exonStarts 64323163,64323316,64323405,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 64323304,64323342,64323480,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)
      panTro3.xenoMrna.qName (via xenoRefFlat.name)
      panTro3.xenoRefGene.name (via xenoRefFlat.name)
      panTro3.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
IGFLR1NR_144341chr14-64323163643234806432348064323480364323163,64323316,64323405,64323304,64323342,64323480,
CipcNM_173735chr14+763878607640766276396055764047051076387860,76396055,76400198,76403811,76404031,76406559,76406722,76406887,76407090,76407596,76387968,76396233,76400368,76404021,76404720,76406601,76406796,76406996,76407228,76407662,
Galnt16NM_001361700chr14+684391126853165268439228685293502168439112,68498215,68501852,68502494,68503119,68505613,68508627,68510245,68510655,68515814,68516690,68518847,68524223,68525060,68 ...68439405,68498373,68501951,68502562,68503185,68505735,68508715,68510327,68510762,68515941,68516783,68518931,68524365,68525186,68 ...
1700019N19RikNM_001368689chr10-1160901671160936741160901671160936742116090167,116093617,116090358,116093674,
Slc25a45NM_001361973chr11-63316286633218476331629463321838563316286,63316703,63319265,63320012,63321801,63316561,63316964,63319448,63320065,63321847,
Slc10a1NM_001361972chr14-68964788689836716896478868983665468964788,68965631,68972568,68983309,68964974,68965805,68972779,68983671,
PLEKHG6NM_001384601chr12+6462025647079664636886470780126462025,6463620,6465450,6466830,6467379,6467693,6468079,6469127,6469323,6469679,6470123,6470567,6462192,6463826,6465606,6466995,6467475,6467744,6468229,6469238,6469521,6469817,6470243,6470796,
rbksNM_001140851chr2A-28168965282768332816896528276833528168965,28219188,28229662,28244925,28276782,28169139,28219281,28229806,28245051,28276833,
Irf1NM_001159396chr5-13314971413315615113315056613315614219133149714,133149807,133150012,133150125,133150248,133150278,133150401,133150473,133150509,133150560,133150975,133152282,13315288 ...133149750,133149997,133150102,133150180,133150258,133150305,133150429,133150496,133150523,133150599,133151113,133152332,13315295 ...
gpx1NM_001015740chrX-13313656133141301331365613314130113313656,13314130,

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