Schema for xenoRefFlat
  Database: danRer11    Primary Table: xenoRefFlat    Row Count: 164,771   Data last updated: 2020-08-18
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName TIMP2varchar(255) values Name of gene as it appears in genome browser.
name NM_001166186varchar(255) values Name of gene
chrom chr12varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 33993136int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 34035024int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 33993136int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 34035024int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 8int(10) unsigned range Number of exons
exonStarts 33993136,33995294,33996133,...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 33993334,33995422,33996135,...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        danRer11.xenoMrna.qName (via xenoRefFlat.name)
      danRer11.xenoRefGene.name (via xenoRefFlat.name)
      danRer11.xenoRefSeqAli.qName (via xenoRefFlat.name)
      hgFixed.gbCdnaInfo.acc (via xenoRefFlat.name)
      hgFixed.gbSeq.acc (via xenoRefFlat.name)
      hgFixed.imageClone.acc (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
TIMP2NM_001166186chr12-33993136340350243399313634035024833993136,33995294,33996133,33997033,33997071,33997227,34034908,34034967,33993334,33995422,33996135,33997050,33997140,33997330,34034910,34035024,
TM2D3NM_001293227chr18-2051672073032051702073033205167,206429,207146,205336,206505,207303,
KANK1NM_001293232chr5+449181914493598244918191449359821544918191,44918365,44918524,44918755,44919313,44919997,44920570,44928863,44928926,44929983,44931618,44934210,44935103,44935593,44 ...44918320,44918419,44918614,44919001,44919718,44920099,44920672,44928902,44928967,44930047,44931708,44934429,44935246,44935794,44 ...
MYCNNM_001293231chr20+33297773332991273329777333298406733297773,33297932,33298115,33298503,33298525,33298911,33299083,33297797,33297986,33298406,33298516,33298537,33298949,33299127,
MYCNNM_001293228chr20+33295251332991273329525133298406933295251,33295566,33295737,33297773,33297932,33298115,33298503,33298911,33299083,33295395,33295653,33295785,33297797,33297986,33298406,33298537,33298949,33299127,
GPC1NM_001303227chr22+15507310155460201550731015546020415507310,15540110,15543397,15545840,15507401,15540268,15543553,15546020,
NptnNM_001357751chr18-116172511973281161725119732841161725,1173819,1175396,1196980,1161785,1174083,1175513,1197328,
Slc25a44NM_001357749chr7+48300204483030754830020448302891448300204,48300702,48302111,48302882,48300663,48300841,48302230,48303075,
Copz1NM_001357748chr23+36340973363536963634097336348559836340973,36343229,36343396,36343576,36343724,36348226,36348490,36353648,36341042,36343311,36343488,36343632,36343803,36348277,36348559,36353696,
Gtpbp2NM_001357745chr13-8617658705628617658705117861765,862360,862603,865740,866319,869754,870377,861891,862510,862777,865914,866517,869863,870562,

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