Schema for xenoRefFlat
  Database: rheMac8    Primary Table: xenoRefFlat    Row Count: 241,830   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 ZCCHC4varchar(255) values Name of gene as it appears in genome browser.
name NM_001205699varchar(255) values Name of gene
chrom chr5varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 24705810int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 24761896int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 24705831int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 24761757int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 13int(10) unsigned range Number of exons
exonStarts 24705810,24707032,24708295,...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 24705958,24707151,24708378,...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)
      rheMac8.xenoRefGene.name (via xenoRefFlat.name)
      rheMac8.xenoRefSeqAli.qName (via xenoRefFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
ZCCHC4NM_001205699chr5+247058102476189624705831247617571324705810,24707032,24708295,24725400,24726124,24737710,24741671,24743439,24754545,24754914,24757154,24757933,24761621,24705958,24707151,24708378,24725676,24726205,24737784,24741821,24743540,24754667,24754990,24757206,24758078,24761896,
col9a1.LNM_001093327chr4-683378686840518068337868684051801668337868,68348476,68355439,68357414,68357644,68357664,68375371,68377578,68378065,68379868,68383752,68390120,68392178,68392185,68 ...68338000,68348556,68355636,68357461,68357647,68357796,68375425,68377632,68378119,68379921,68383804,68390174,68392180,68392240,68 ...
xylt1NM_001172397chr20+170631451742723617063145174272361317063145,17275980,17276326,17335259,17335471,17337655,17377388,17394908,17397737,17401365,17408140,17418296,17426912,17063253,17276116,17276492,17335429,17335474,17337856,17377469,17395127,17397914,17401602,17408281,17418599,17427236,
spns2NM_001126677chr16+4404858444398244048584443982134404858,4419513,4419691,4431946,4434387,4438134,4438551,4440279,4440716,4440973,4441507,4443636,4443823,4404923,4419574,4419695,4432078,4434393,4438282,4438622,4440363,4440868,4441163,4441573,4443735,4443982,
SNORD115-34NR_003349chrUn_NW_014960451v1+050505010,50,
SNORD115-35NR_003350chr7+206278520628672062867206286712062785,2062867,
SNORD115-35NR_003350chrUn_NW_014960451v1+050505010,50,
USP1NM_001017416chr1+621395266215452962142813621537001162139526,62142749,62144650,62145326,62146288,62147857,62150352,62151193,62152964,62153674,62154264,62139694,62142983,62144771,62145431,62146449,62148549,62150523,62151395,62153636,62154255,62154529,
Setdb1NM_001271175chr1+12539028812543190012539029812543153024125390288,125392583,125406718,125408129,125409048,125409335,125410407,125411408,125413712,125416016,125416144,125416262,12541743 ...125390555,125392738,125406753,125408229,125409172,125409539,125410481,125411599,125413839,125416126,125416173,125416422,12541799 ...
LOC107886968NM_001326733chr11+47557052475607874755705247560787347557052,47557405,47559821,47557275,47557554,47560787,

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