Schema for ncbiRefSeqCurated
  Database: felCat9    Primary Table: ncbiRefSeqCurated    Row Count: 391   Data last updated: 2020-04-01
Format description: A gene prediction with some additional info.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 673smallint(5) unsigned range Indexing field to speed chromosome range queries.
name NM_001009858.1varchar(255) values Name of gene (usually transcript_id from GTF)
chrom chrA1varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 11563271int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 11622511int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 11563271int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 11622186int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 31int(10) unsigned range Number of exons
exonStarts 11563271,11565646,11571100,...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 11563338,11565871,11571209,...longblob   Exon end positions (or start positions for minus strand item)
score 0int(11) range score
name2 BRCA2varchar(255) values Alternate name (e.g. gene_id from GTF)
cdsStartStat cmplenum('none', 'unk', 'incmpl', 'cmpl') values Status of CDS start annotation (none, unknown, incomplete, or complete)
cdsEndStat cmplenum('none', 'unk', 'incmpl', 'cmpl') values Status of CDS end annotation (none, unknown, incomplete, or complete)
exonFrames 0,1,1,2,1,0,1,0,1,1,1,2,1,0...longblob   Reading frame of the start of the CDS region of the exon, in the direction of transcription (0,1,2), or -1 if there is no CDS region.

Connected Tables and Joining Fields
        felCat9.ncbiRefSeq.name (via ncbiRefSeqCurated.name)
      felCat9.ncbiRefSeqCds.id (via ncbiRefSeqCurated.name)
      felCat9.ncbiRefSeqLink.id (via ncbiRefSeqCurated.name)
      felCat9.ncbiRefSeqPredicted.name (via ncbiRefSeqCurated.name)
      felCat9.ncbiRefSeqPsl.qName (via ncbiRefSeqCurated.name)
      felCat9.seqNcbiRefSeq.acc (via ncbiRefSeqCurated.name)

Sample Rows
 
binnamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEndsscorename2cdsStartStatcdsEndStatexonFrames
673NM_001009858.1chrA1+115632711162251111563271116221863111563271,11565646,11571100,11571829,11571975,11572208,11573064,11574005,11574951,11577487,11580062,11580070,11580082,11582017,11 ...11563338,11565871,11571209,11571876,11572016,11572320,11573114,11574117,11576070,11580061,11580069,11580081,11582016,11582027,11 ...0BRCA2cmplcmpl0,1,1,2,1,0,1,0,1,1,1,2,1,0,1,1,1,2,1,0,2,2,0,0,1,0,1,0,1,0,0,
759NM_001309049.1chrA1+22918805229203482291905722920092122918805,22920348,0LPAR6cmplcmpl0,
771NM_001048155.1chrA1-24436704244818592443764324461268924436704,24455532,24460023,24461220,24472201,24473001,24476952,24477084,24481792,24437754,24455610,24460161,24461330,24472274,24473055,24476989,24477174,24481859,0LRCH1cmplcmpl0,0,0,0,-1,-1,-1,-1,-1,
1173NM_001114344.1chrA1-77088366771301447708836677130144577088366,77090096,77090957,77107822,77130022,77088755,77090210,77091050,77108106,77130144,0EFNB2cmplcmpl1,1,1,2,0,
1213NM_001163655.1chrA1+82349957823670918234996482366275982349957,82355010,82356955,82357292,82363801,82364528,82365408,82365544,82366135,82350016,82355132,82357175,82357451,82363989,82364654,82365475,82365715,82367091,0LAMP1cmplcmpl0,1,0,1,1,0,0,1,1,
1284NM_001167474.1chrA1+91725271917261749172527191726174191725271,91726174,0FELCATV1R2cmplcmpl0,
1433NM_001309037.1chrA1+1111903861111922901111903861111922904111190386,111190641,111191340,111192184,111190545,111190683,111191466,111192290,0CSF2cmplcmpl0,0,0,0,
1436NM_001009845.2chrA1-1116392201116412401116396101116411964111639220,111639816,111640817,111641052,111639709,111639945,111640850,111641240,0IL5cmplcmpl0,0,0,0,
1437NM_001043339.1chrA1+1117787111117875441117787451117874494111778711,111779150,111785000,111787356,111778880,111779198,111785126,111787544,0IL4cmplcmpl0,0,0,0,
1439NM_001165900.1chrA1-1119464941119495091119464941119495092111946494,111949115,111947457,111949509,0GDF9cmplcmpl1,0,

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