Schema for xenoRefFlat
  Database: oviAri3    Primary Table: xenoRefFlat    Row Count: 226,920   Data last updated: 2020-08-22
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName alg12varchar(255) values Name of gene as it appears in genome browser.
name NM_001140438varchar(255) values Name of gene
chrom chr3varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 223545608int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 223549917int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 223545608int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 223549917int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 7int(10) unsigned range Number of exons
exonStarts 223545608,223545778,2235463...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 223545689,223545937,2235465...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)
      oviAri3.xenoMrna.qName (via xenoRefFlat.name)
      oviAri3.xenoRefGene.name (via xenoRefFlat.name)
      oviAri3.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
alg12NM_001140438chr3-2235456082235499172235456082235499177223545608,223545778,223546324,223547045,223548101,223549631,223549833,223545689,223545937,223546540,223547147,223548248,223549757,223549917,
nsma3NM_001140437chr17+71651922716623077165192271662307971651922,71653355,71654172,71654502,71655805,71657633,71660637,71661101,71662145,71651961,71653430,71654214,71654589,71655913,71657708,71660757,71661188,71662307,
LOC102392019NM_001290963chr7+56126088562124085612608856212408956126088,56129427,56144136,56147212,56149786,56152946,56153722,56156691,56212159,56126233,56129580,56144289,56147389,56149901,56153061,56153885,56156933,56212408,
PSPC1NM_001257902chr10+364648993651400536464909365137161136464899,36464987,36468778,36477405,36481613,36486318,36489899,36507645,36511185,36513530,36513832,36464987,36465163,36469080,36477501,36481810,36486398,36490010,36507703,36511355,36513819,36514005,
TRAM1L1NM_001287677chr9-468611754711834947088557471183411346861175,47088465,47088556,47095514,47096366,47096457,47096793,47103143,47103285,47105049,47106376,47106607,47118216,46861199,47088543,47088615,47095649,47096369,47096562,47096859,47103146,47103370,47105106,47106493,47106730,47118349,
Etv3NM_012051chr1-10562750010564247310563100510564045521105627500,105627657,105628013,105628361,105628553,105628647,105628770,105629561,105629861,105629987,105630183,105630368,10563092 ...105627584,105627815,105628043,105628388,105628624,105628704,105628920,105629606,105629912,105630047,105630268,105630404,10563095 ...
PDE7ANM_001134151chr9-429334504299111942934363429911011942933450,42933646,42933835,42933922,42934161,42934272,42934411,42938375,42939155,42940155,42942681,42942984,42945108,42947102,42 ...42933637,42933826,42933906,42934013,42934259,42934408,42934572,42938456,42939252,42940299,42942774,42943116,42945209,42947198,42 ...
arpc2.SNM_001091573chr2+2192429142192682572192429142192682577219242914,219252135,219258624,219259406,219264873,219267746,219268155,219242965,219252255,219258812,219259500,219265000,219267847,219268257,
zc3h13NM_200522chr10-164060931649519516406093164951952016406093,16408029,16410534,16412456,16415164,16415347,16416124,16416272,16416629,16426013,16441075,16453880,16453961,16454007,16 ...16406177,16408193,16410733,16412507,16415194,16415487,16416188,16416314,16416680,16426025,16441153,16453901,16453985,16454070,16 ...
EDF1NM_001006203chr3+8411498429918411498429434841149,841530,842139,842895,841201,841691,842235,842991,

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