Schema for refFlat
  Database: criGriChoV1    Primary Table: refFlat    Row Count: 552   Data last updated: 2020-08-21
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName Adapt15varchar(255) values Name of gene as it appears in genome browser.
name NR_045124varchar(255) values Name of gene
chrom NW_003613597v1varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 2388363int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 2390088int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 2390088int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 2390088int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 5int(10) unsigned range Number of exons
exonStarts 2388363,2388761,2388896,238...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 2388388,2388817,2388975,238...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        hgFixed.refLink.name (via refFlat.geneName)
      criGriChoV1.mrnaOrientInfo.name (via refFlat.name)
      criGriChoV1.refGene.name (via refFlat.name)
      criGriChoV1.refSeqAli.qName (via refFlat.name)
      hgFixed.gbCdnaInfo.acc (via refFlat.name)
      hgFixed.gbSeq.acc (via refFlat.name)
      hgFixed.imageClone.acc (via refFlat.name)
      hgFixed.refLink.mrnaAcc (via refFlat.name)
      hgFixed.refSeqStatus.mrnaAcc (via refFlat.name)
      hgFixed.refSeqSummary.mrnaAcc (via refFlat.name)
      knownGeneV39.kgXref.refseq (via refFlat.name)
      knownGeneV39.knownToRefSeq.value (via refFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
Adapt15NR_045124NW_003613597v1+238836323900882390088239008852388363,2388761,2388896,2389290,2389557,2388388,2388817,2388975,2389351,2390088,
ScapNM_001244036NW_003614047v1+91089294124891099194108822910892,919004,928903,929727,930142,930761,931272,933203,934537,935426,935653,936484,937230,937504,937778,937973,938646,939870,94 ...911113,919134,929061,929948,930248,930934,931399,933316,934632,935525,935872,936861,937419,937706,937894,938487,938732,939953,94 ...
Pex2NM_001244035NW_003614201v1+8167078179518167078176221816707,817951,
Top1NM_001244034NW_003614415v1+19328127714419328127593520193281,220109,231784,234127,239380,241264,246939,252705,257549,258482,262002,262431,265780,266964,267914,268947,270534,273169,27 ...193311,220212,231908,234183,239476,241340,247046,252821,257671,258605,262190,262576,265924,267150,267983,269062,270662,273264,27 ...
Scarb1NM_001244848NW_003614436v1-66527673409466817373393913665276,668173,670952,671701,673476,676005,681230,685844,687670,689285,690617,692421,733813,665377,668302,671099,671753,673550,676124,681397,685960,687766,689489,690759,692579,734094,
Pea15NM_001244851NW_003613783v1-6984817075736996257014394698481,699852,701267,707515,699690,700008,701441,707573,
GapdhNM_001244854NW_003613610v1+357213135758483572402357565773572131,3572384,3574312,3574814,3574985,3575297,3575587,3572185,3572425,3574726,3574896,3575216,3575479,3575848,
Pex7NM_001244853NW_003613627v1-2381285244602323816912445947102381285,2393312,2415385,2417837,2419439,2430508,2431009,2442990,2444336,2445871,2381760,2393412,2415441,2417951,2419546,2430617,2431087,2443141,2444395,2446023,
Smu1NM_001244852NW_003615120v1-20511521948820511521948812205115,205869,207310,208127,208959,210064,211399,213439,214371,215862,217815,219462,205214,206022,207478,208254,209087,210181,211519,213568,214482,216015,218026,219488,
St3gal4NM_001246699NW_003613908v1-1022010102885510220141028828101022010,1022418,1025385,1026242,1026546,1027338,1027676,1027948,1028422,1028812,1022101,1022562,1025529,1026432,1026642,1027399,1027774,1028029,1028510,1028855,

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