Schema for xenoRefFlat
  Database: melUnd1    Primary Table: xenoRefFlat    Row Count: 401,532   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 polr1dvarchar(255) values Name of gene as it appears in genome browser.
name NM_001141224varchar(255) values Name of gene
chrom JH556535varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 248917int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 251663int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 248917int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 251663int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 3int(10) unsigned range Number of exons
exonStarts 248917,250622,251591,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 249013,250688,251663,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)
      melUnd1.xenoRefGene.name (via xenoRefFlat.name)
      melUnd1.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
polr1dNM_001141224JH556535+2489172516632489172516633248917,250622,251591,249013,250688,251663,
ERV3-1NM_001308194JH556469-125332912534521253329125345211253329,1253452,
CACNA1GNM_198379JH556490+3493456358256734934563582567393493456,3494097,3503209,3505231,3507197,3507323,3507665,3509276,3509720,3509924,3511558,3511785,3523041,3523701,3525022,3525627, ...3493567,3494229,3503309,3505387,3507308,3507475,3507762,3509474,3509750,3510090,3511755,3511922,3523188,3523887,3525140,3525783, ...
Kap-alpha1NM_001247077JH556373+65006698506500669850865006,65191,65360,67552,68439,68688,69352,69739,65141,65194,65417,67657,68496,68760,69436,69850,
COL3A1NM_001266039JH556628+954365795553919543657955539189543657,9546730,9547720,9548857,9550715,9551715,9553462,9555361,9543717,9546769,9547741,9548887,9550745,9551751,9553519,9555391,
COL3A1NM_001266039JH556628+9538304955539195383049555391119538304,9539164,9541096,9543661,9545426,9545590,9546885,9553845,9554745,9555091,9555361,9538343,9539180,9541175,9543708,9545447,9545593,9546918,9553864,9554765,9555109,9555391,
Zfp111NM_133323JH538450-33811133834111133863381,3975,4382,10600,11005,11260,3615,4166,4593,10837,11197,11338,
EXOC6NM_001313786JH556486-1857109194630318571101946303221857109,1858114,1881580,1889036,1898033,1903315,1904928,1906064,1909625,1910865,1911634,1913615,1914117,1914259,1916011,1916851, ...1857236,1858228,1881646,1889178,1898210,1903452,1905033,1906166,1909716,1910963,1911706,1913735,1914165,1914292,1916077,1916869, ...
ANK3NM_001320874JH556609-236718572377476223671857237747623323671857,23681441,23681470,23682623,23682657,23683626,23684740,23687682,23700707,23705610,23717068,23722449,23724652,23727480,23 ...23672087,23681443,23681567,23682657,23682822,23683842,23684839,23687907,23700782,23705691,23717140,23722542,23724739,23727576,23 ...
Ror2NM_001107339JH556633+13214825132589921321482513258992813214825,13249356,13249474,13252746,13253945,13255715,13257549,13258914,13215125,13249469,13249476,13253060,13254191,13255918,13258887,13258992,

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