Schema for xenoRefFlat
  Database: oryLat2    Primary Table: xenoRefFlat    Row Count: 267,261   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 septin11varchar(255) values Name of gene as it appears in genome browser.
name NM_001142898varchar(255) values Name of gene
chrom chr14varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 5478642int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 5493483int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 5478642int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 5493483int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 9int(10) unsigned range Number of exons
exonStarts 5478642,5478765,5478824,548...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 5478730,5478767,5478984,548...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)
      oryLat2.xenoMrna.qName (via xenoRefFlat.name)
      oryLat2.xenoRefGene.name (via xenoRefFlat.name)
      oryLat2.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
septin11NM_001142898chr14-547864254934835478642549348395478642,5478765,5478824,5482865,5482912,5483657,5489029,5493078,5493380,5478730,5478767,5478984,5482871,5483004,5483826,5489212,5493274,5493483,
GSSNM_001267743chr7+359044735970793590447359707993590447,3590663,3590860,3591714,3591983,3595066,3595443,3595719,3596986,3590587,3590748,3590863,3591846,3592052,3595114,3595644,3595803,3597079,
HAGHNM_001267741chr8-12557452125601391255745212560139712557452,12557615,12557792,12558758,12559024,12559275,12560040,12557515,12557717,12557890,12558861,12559097,12559346,12560139,
PRLRNM_001267737chr12-915451091657049154510916570459154510,9154612,9154863,9156409,9165575,9154555,9154669,9154908,9156454,9165704,
LOC106127951NM_001312119chr24+13993954139948991399395413994899313993954,13994500,13994797,13994062,13994519,13994899,
LOC106123343NM_001312116chr3+22170772221780092217077222178009322170772,22171394,22177907,22170799,22171481,22178009,
LOC106118991NM_001312114chr19+84621785383584621785383511846217,846333,846441,848305,848454,848712,850629,851492,853332,853541,853805,846257,846367,846445,848379,848635,848856,850725,851615,853416,853709,853835,
tbrg4NM_001292813chr16-14070896140753751407089614075375614070896,14074815,14075084,14075136,14075226,14075336,14070995,14074970,14075118,14075199,14075259,14075375,
OR4S1NM_001004725chr14+24403239244034852440323924403485224403239,24403419,24403326,24403485,
COL5A1NM_001014971chr12+5236911530216852369115302168635236911,5239402,5242924,5243285,5260488,5261670,5264293,5264898,5265114,5265248,5267102,5267258,5267393,5267590,5267722,5268098, ...5237071,5239407,5243133,5243448,5260608,5261706,5264344,5264937,5265177,5265323,5267153,5267270,5267450,5267644,5267776,5268143, ...

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