Schema for xenoRefFlat
  Database: xenTro9    Primary Table: xenoRefFlat    Row Count: 164,095   Data last updated: 2020-08-20
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName ctbp1.Lvarchar(255) values Name of gene as it appears in genome browser.
name NM_001085682varchar(255) values Name of gene
chrom chr1varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 14365028int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 14411361int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 14365028int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 14411354int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 9int(10) unsigned range Number of exons
exonStarts 14365028,14384596,14398241,...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 14365068,14384754,14398383,...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)
      xenTro9.xenoRefGene.name (via xenoRefFlat.name)
      xenTro9.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
ctbp1.LNM_001085682chr1+14365028144113611436502814411354914365028,14384596,14398241,14398523,14401774,14406628,14407003,14408031,14411170,14365068,14384754,14398383,14398730,14401989,14406759,14407131,14408149,14411361,
hck.LNM_001085681chrUn_NW_016683967v1-918178069181780611918,2171,4114,5956,7203,7741,7983,8326,8667,16730,17733,1058,2325,4374,6109,7219,7865,8085,8425,8767,16775,17806,
tp53i11NM_001292267chr4+351647635220713516476352206853516476,3517701,3520457,3521176,3521990,3516584,3517761,3520554,3521259,3522071,
Agbl5NM_001048192chr8-547272455474127054727245547412701254727245,54728039,54730012,54731925,54732234,54732393,54733030,54733273,54736796,54739218,54741062,54741192,54727368,54728178,54730182,54732033,54732288,54732501,54733201,54733279,54736967,54739388,54741147,54741270,
Vom2r72NM_001099517chr1+281974112807228197411280726281974,571558,612259,705727,1023439,1127974,282019,571594,612475,705769,1023677,1128072,
Vom2r73NM_001099486chr1+281977112807228197711280727281977,571558,620919,622981,705703,1023439,1127974,282019,571594,620933,623233,705769,1023677,1128072,
PTPRBNM_002837chr3-500225315004733250022531500473323150022531,50025341,50025740,50026511,50026927,50028370,50029488,50029959,50031017,50031022,50033098,50033530,50035394,50035762,50 ...50022653,50025477,50025904,50026514,50027043,50028509,50029565,50030047,50031020,50031103,50033197,50033635,50035546,50036039,50 ...
LOC690435NM_001047975chr1-6181946186196181946186193618194,618254,618415,618232,618415,618619,
LOC499584NM_001047948chr1-6182056185936182056185935618205,618260,618358,618479,618588,618260,618320,618464,618558,618593,
H3.3; histone 3.3; T5J17.210NM_001342565chr3-1251042101251046211251042101251046211125104210,125104621,

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