Schema for xenoRefFlat
  Database: latCha1    Primary Table: xenoRefFlat    Row Count: 434,959   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 Mindy3varchar(255) values Name of gene as it appears in genome browser.
name NM_001355537varchar(255) values Name of gene
chrom JH127403varchar(255) values Reference sequence chromosome or scaffold
strand -char(1) values + or - for strand
txStart 401658int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 587371int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 401668int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 543943int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 13int(10) unsigned range Number of exons
exonStarts 401658,416104,420236,430296...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 401815,416176,420314,430356...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)
      latCha1.xenoMrna.qName (via xenoRefFlat.name)
      latCha1.xenoRefGene.name (via xenoRefFlat.name)
      latCha1.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
Mindy3NM_001355537JH127403-40165858737140166854394313401658,416104,420236,430296,453411,453443,521036,524836,543331,543394,543581,543886,587289,401815,416176,420314,430356,453413,453507,521117,524907,543332,543469,543614,544006,587371,
Tm1NM_001159872JH127746+61832911626183291162361832,85276,91084,61886,85399,91162,
KAT5NM_001192066JH126992-48784555022748784555022714487845,490217,490227,496885,497690,498454,498490,499762,519048,544261,544366,546367,546663,550163,487971,490220,490308,496981,497829,498456,498580,500012,519078,544327,544393,546369,546735,550227,
MAPK10NM_001318069JH127162+27048046603827048646444015270480,317467,369249,379875,383607,402475,406957,427951,429614,440671,445255,464255,464547,464623,465969,270552,317637,369379,379934,383746,402641,407031,428132,429739,440735,445333,464440,464573,464653,466038,
slc26a6NM_001091806AFYH01284070-3164603164601316,460,
PTPRKNM_001291981JH130775+33294335673329433567133294,33567,
RIT2NM_002930JH128057+1690401817331690401817336169040,172895,177641,178776,179273,181613,169090,172954,177715,178779,179465,181733,
Grin2bNM_012574JH128285-49689297706496922977061249689,56396,72400,103244,106599,113946,124123,124391,140402,297166,297529,297589,49764,56635,72587,103406,106829,114072,124279,124533,140510,297502,297556,297706,
RCOR1NM_015156JH128893+3105323107403105323107402310532,310681,310587,310740,
kif4NM_200823JH126894-7377877397057377877397057737787,738185,738434,738752,739062,739174,739453,738185,738327,738626,739028,739173,739444,739705,

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