Schema for xenoRefFlat
  Database: nasLar1    Primary Table: xenoRefFlat    Row Count: 387,633   Data last updated: 2020-08-19
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName CSNK1G1varchar(255) values Name of gene as it appears in genome browser.
name NM_001038146varchar(255) values Name of gene
chrom chr10varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 74693563int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 74696879int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 74693563int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 74696879int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 5int(10) unsigned range Number of exons
exonStarts 74693563,74694201,74694323,...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 74693659,74694204,74694446,...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)
      nasLar1.xenoRefGene.name (via xenoRefFlat.name)
      nasLar1.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
CSNK1G1NM_001038146chr10-74693563746968797469356374696879574693563,74694201,74694323,74696521,74696804,74693659,74694204,74694446,74696632,74696879,
PAQR6NM_001272107chrUn_JMHX01281251v1+95826519826295,698,586,826,
Padi6NM_001191766chr1-18305862183295431830586218329543418305862,18311493,18315057,18329480,18305994,18311616,18315159,18329543,
LMO1NM_002315chr14+60682422606887066068242260688413360682422,60685857,60688307,60682638,60685983,60688706,
LIMK1NM_002314chr10+68230483682449416823048368244941968230483,68233188,68237526,68238440,68239249,68242583,68243965,68244055,68244885,68230592,68233257,68237595,68238527,68239327,68242640,68244016,68244137,68244941,
LIMK1NM_002314chrUn_JMHX01185209v1+0908030820,145,56,908,
ABLIM1NM_002313chr9-1069656111071647671069656111071646939106965611,106968164,106971902,106973635,107060932,107063617,107086436,107090622,107164449,106965703,106968305,106971950,106973741,107061040,107063744,107086546,107090808,107164767,
LINC01044NR_126345chr17+359073735909343590934359093413590737,3590934,
TUBBNM_001032813chr4+28968572289721932896864628972150328968572,28971735,28972123,28968703,28972121,28972193,
ST3GAL3NM_174968chr1+43368645435182024336867643518202543368645,43419452,43441644,43462218,43518106,43368794,43419500,43441688,43462313,43518202,

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