Schema for xenoRefFlat
  Database: dp2    Primary Table: xenoRefFlat    Row Count: 250,169   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 Cyp314a1varchar(255) values Name of gene as it appears in genome browser.
name NM_001112748varchar(255) values Name of gene
chrom Contig815_Contig5737varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 185281int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 186671int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 185281int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 186671int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 4int(10) unsigned range Number of exons
exonStarts 185281,185914,186203,186434,longblob   Exon start positions (or end positions for minus strand item)
exonEnds 185378,186001,186284,186671,longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        dp2.xenoMrna.qName (via xenoRefFlat.name)
      dp2.xenoRefGene.name (via xenoRefFlat.name)
      dp2.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
Cyp314a1NM_001112748Contig815_Contig5737-1852811866711852811866714185281,185914,186203,186434,185378,186001,186284,186671,
ptprn2NM_001128667Contig1828_Contig8101-6048816060926048816060925604881,605271,605452,605857,606008,605115,605388,605647,605938,606092,
EIF2AK2NM_001305976Contig4374_Contig4847+226499622651252264996226512512264996,2265125,
LOC105391609NM_001305540Contig903_Contig7450-5381295413475381295413478538129,538301,538484,538637,538931,539375,539553,541035,538171,538454,538604,538895,539342,539486,539673,541347,
SNAI3NM_001192633Contig6780_Contig1402-7276887280067276887280061727688,728006,
TUBGCP3NM_001192632Contig7446_Contig2444-88739929368873992936488739,92467,92750,92819,88886,92524,92798,92936,
ARMC4NM_001192631Contig7891_Contig7492B-5279185283175279185283172527918,528242,528218,528317,
TBX6NM_001192630Contig1778_Contig4674+1053931076881053931076884105393,106675,107478,107592,105465,106686,107523,107688,
TBX6NM_001192630Contig2587_Contig858+31075319453107531945531075,31332,31668,31755,31879,31171,31599,31704,31800,31945,
TBX6NM_001192630Contig4055_Contig7066+7257967563077257967563074725796,735370,756040,756259,725946,735376,756091,756307,

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