Schema for xenoRefFlat
  Database: sarHar1    Primary Table: xenoRefFlat    Row Count: 502,601   Data last updated: 2020-08-20
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type description
geneName LOC100190035varchar(255) Name of gene as it appears in genome browser.
name NM_001245365varchar(255) Name of gene
chrom chr1_GL834412_randomvarchar(255) Reference sequence chromosome or scaffold
strand +char(1) + or - for strand
txStart 183608int(10) unsigned Transcription start position (or end position for minus strand item)
txEnd 189467int(10) unsigned Transcription end position (or start position for minus strand item)
cdsStart 183608int(10) unsigned Coding region start (or end position for minus strand item)
cdsEnd 189467int(10) unsigned Coding region end (or start position for minus strand item)
exonCount 4int(10) unsigned Number of exons
exonStarts 183608,184755,184869,189294,longblob Exon start positions (or end positions for minus strand item)
exonEnds 183680,184824,184957,189467,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)
      sarHar1.xenoMrna.qName (via xenoRefFlat.name)
      sarHar1.xenoRefGene.name (via xenoRefFlat.name)
      sarHar1.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
LOC100190035NM_001245365chr1_GL834412_random+1836081894671836081894674183608,184755,184869,189294,183680,184824,184957,189467,
mbk-2NM_001380500chr4_GL856779_random+302904630301433029046303014313029046,3030143,
TESCNM_001080884chr2_GL841451_random-2212362213532212362213531221236,221353,
Bcl11bNM_001079883chr1_GL834589_random+52767767202152771666699029527677,527712,528636,543029,577836,577998,664551,665153,665462,665531,665927,666504,667217,667392,667463,667638,668381,668503,66 ...527701,527774,528639,543395,577860,578056,665144,665426,665483,665600,666050,666990,667267,667410,667517,667704,668494,668545,66 ...
C2cd5NM_001362117chr5_GL861608_random+9998201134624999835113462414999820,1007183,1011193,1021656,1022865,1032015,1036527,1043894,1044642,1120839,1122867,1127721,1131491,1134508,999925,1007270,1011368,1021746,1023016,1032194,1036652,1043980,1044676,1120891,1123057,1127728,1131630,1134624,
C2cd5NM_001362118chr5_GL861608_random+99982011346241043896113462412999820,1007183,1011193,1021656,1022865,1032015,1043894,1044642,1122866,1127721,1131491,1134508,999925,1007270,1011368,1021746,1023016,1032194,1043980,1044676,1123057,1127728,1131630,1134624,
letm1NM_001079325chr6_GL864875_random+48944853750948944853750911489448,489859,506838,507472,508966,509240,513517,519910,528991,531232,537437,489733,489862,506979,507574,509169,509244,513634,520039,529126,531370,537509,
TOMM6NM_001113718chr5_GL862215_random+648466126484661226484,6528,6526,6612,
MRPL48NR_134659chr1_GL834554_random-1684644739474739474739474168464,168734,168956,473860,168524,168749,168998,473947,
MRPL48NR_134658chr1_GL834554_random-1684644739474739474739474168464,168734,168956,473860,168524,168749,168998,473947,

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