Schema for xenoRefFlat
  Database: xenTro2    Primary Table: xenoRefFlat    Row Count: 367,227   Data last updated: 2020-09-02
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName prkag1varchar(255) values Name of gene as it appears in genome browser.
name NM_213161varchar(255) values Name of gene
chrom scaffold_130varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 1858681int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 1866893int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 1858681int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 1866893int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 11int(10) unsigned range Number of exons
exonStarts 1858681,1859134,1860952,186...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 1858774,1859281,1860990,186...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)
      xenTro2.xenoRefGene.name (via xenoRefFlat.name)
      xenTro2.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
prkag1NM_213161scaffold_130-1858681186689318586811866893111858681,1859134,1860952,1862887,1863071,1863318,1863607,1863979,1864471,1866149,1866810,1858774,1859281,1860990,1862894,1863227,1863448,1863662,1864025,1864530,1866235,1866893,
TENT5CNM_001246587scaffold_1447-21875230152187523015121875,23015,
ZBTB2NM_001258066scaffold_206-3697993735773697993735724369799,370489,370843,373402,370450,370687,371168,373577,
MIR1268ANR_031672scaffold_14923-484648824882488214846,4882,
Rnu2-10NR_004414scaffold_273-089898910,89,
Rnu2-10NR_004414scaffold_273-6047917917911604,791,
Rnu2-10NR_004414scaffold_273-190420912091209111904,2091,
Rnu2-10NR_004414scaffold_414+8558488558948558948558941855848,855894,
Elavl4NM_001038698scaffold_1+4583891461340645838914611395184583891,4597106,4602474,4604829,4608843,4611055,4611449,4611987,4612074,4612230,4612433,4612479,4612547,4612664,4613012,4613183, ...4584133,4597210,4602628,4605055,4608883,4611406,4611715,4612011,4612221,4612382,4612459,4612522,4612615,4612863,4613135,4613228, ...
yipf6.LNM_001097837scaffold_861+22393623211722398922988425223936,223986,225636,225860,226666,227362,228346,229762,230129,230352,230414,230471,230573,230699,230754,230836,230854,230947,23 ...223977,224034,225765,225939,226708,227488,228503,230082,230306,230403,230454,230543,230587,230732,230790,230844,230914,230959,23 ...

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