Schema for xenoRefFlat
  Database: nomLeu1    Primary Table: xenoRefFlat    Row Count: 350,149   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 unkvarchar(255) values Name of gene as it appears in genome browser.
name NM_001032343varchar(255) values Name of gene
chrom GL397452varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 969279int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 982547int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 969279int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 982547int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 14int(10) unsigned range Number of exons
exonStarts 969279,971331,971672,972297...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 969453,971507,971805,972431...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)
      nomLeu1.xenoMrna.qName (via xenoRefFlat.name)
      nomLeu1.xenoRefGene.name (via xenoRefFlat.name)
      nomLeu1.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
unkNM_001032343GL397452+96927998254796927998254714969279,971331,971672,972297,972978,974359,975958,976519,976621,977789,978841,979077,981619,982409,969453,971507,971805,972431,973096,974443,976090,976576,976702,977973,978943,979264,981803,982547,
zmym4.LNM_001136165GL397355+21845628249821845628249828218456,221017,221152,229399,229791,240598,240871,244587,245220,246138,246282,246339,246595,248052,249063,251351,251735,252683,25 ...218495,221137,221179,229468,229944,240759,241085,244731,245331,246216,246330,246420,246746,248225,249180,251442,251773,252827,25 ...
MIRLET7A1NR_029476GL397281-125851112585911258591125859111258511,1258591,
LOC542600NM_001112135GL397423-240898724278412408987242784122408987,2427742,2409155,2427841,
LOC542598NM_001112133GL397287+16909301169207511690930116920751616909301,16912311,16913962,16919433,16919997,16920670,16909355,16912335,16914076,16919508,16920111,16920751,
His4:CG33893NM_001032151GL397301-606638360666956066383606669516066383,6066695,
Ap2a1NM_001107511GL397326+1707851174983317078511749833241707851,1722893,1723081,1723596,1732893,1733648,1736542,1739726,1740251,1740553,1740972,1742340,1743164,1744276,1744608,1744867, ...1707920,1722960,1723224,1723791,1733022,1733750,1736651,1739877,1740420,1740694,1741128,1742364,1743262,1744508,1744776,1744944, ...
SPINK5NM_001127699GL397305+157176081577952715717673157794282815717608,15718969,15723961,15725798,15739777,15741890,15742850,15744508,15747699,15749153,15751156,15752546,15754096,15754995,15 ...15717728,15718995,15724089,15725871,15739905,15741954,15742978,15744572,15747827,15749241,15751284,15752628,15754229,15755073,15 ...
rpp0NM_001023384GL397292-11894528118952561189452811895256411894528,11894624,11894925,11895181,11894579,11894789,11895118,11895256,
uri1.LNM_001093262GL397322-13170906131723441317091513172344913170906,13170993,13171059,13171212,13171398,13171415,13171824,13171947,13172119,13170975,13171026,13171092,13171365,13171410,13171448,13171881,13171983,13172344,

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