Schema for xenoRefFlat
  Database: calJac3    Primary Table: xenoRefFlat    Row Count: 372,036   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 DBETvarchar(255) values Name of gene as it appears in genome browser.
name NR_121644varchar(255) values Name of gene
chrom chrUn_GL286344varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 7461int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 8569int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 8569int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 8569int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 6int(10) unsigned range Number of exons
exonStarts 7461,7625,7970,8280,8327,8521,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 7581,7938,8187,8298,8408,8569,longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        calJac3.xenoMrna.qName (via xenoRefFlat.name)
      calJac3.xenoRefGene.name (via xenoRefFlat.name)
      calJac3.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
DBETNR_121644chrUn_GL286344+746185698569856967461,7625,7970,8280,8327,8521,7581,7938,8187,8298,8408,8569,
C3orf14NM_001291941chr15+384690053848670738470449384839241038469005,38469711,38470425,38471911,38481597,38483789,38484300,38484797,38486399,38486451,38469041,38469792,38470502,38472035,38481672,38484286,38484763,38486389,38486442,38486707,
ELP6NM_001194851chr15-23156166231770232315659823177023623156166,23159052,23162666,23164992,23174709,23176969,23156727,23159199,23162868,23165111,23174808,23177023,
Pnliprp1NM_018874chrX+97031283970316889703128397031688297031283,97031475,97031433,97031688,
sca-1NM_001129236chr12-273652692738004427365269273800441327365269,27365577,27365800,27366287,27366592,27367885,27370262,27370369,27370754,27372927,27378532,27379505,27379954,27365347,27365689,27365883,27366492,27366810,27368218,27370265,27370477,27370838,27372999,27378699,27379803,27380044,
HNRNPA3NM_194247chr13+887802658878297188780265887817421588780265,88780350,88780481,88780498,88780581,88780965,88781264,88781371,88781486,88781502,88781588,88781617,88782056,88782496,88 ...88780345,88780450,88780498,88780573,88780650,88781109,88781369,88781464,88781495,88781588,88781617,88781747,88782171,88782581,88 ...
RGMANM_204537chr6+14398270144279731439828214427973514398270,14420775,14427358,14427713,14427766,14398301,14421285,14427704,14427722,14427973,
ZNF558NM_001301293chr2+60780903608583526078090360858159460780903,60797191,60857501,60858322,60781023,60797292,60858159,60858352,
SLC19A2NM_001257523chr18+36985518370065513698558437004829836985518,36993156,37000507,37001853,37002440,37004700,37006353,37006427,36985788,36993759,37000730,37002046,37002582,37006334,37006417,37006551,
tbc1d9bNM_001113841chr2-594897625953268859489762595326882159489762,59489903,59490239,59491493,59494062,59496304,59496718,59496769,59499235,59499442,59501220,59502208,59505209,59505945,59 ...59489882,59490035,59490374,59491598,59494118,59496371,59496721,59497006,59499337,59499581,59501497,59502326,59505427,59506090,59 ...

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