Supplementary Materials for Guigó et al (2003)
PNAS, 100(3):1140-1145 [ Abstract ]
  IMIM * UPF * CRG * GRIB HOME DATASETS Mouse/Human GP Chr12
   
CHROMOSOME 12 RT-PCR SUBMITTED GENES SUMMARY

GENEVA
CODE
GENE
ID
GENE
LOCATION
CDS LEN
/ #EXONS
RTPCR
INTRON
 
BR
 
HE
 
KI
 
TH
 
LI
 
ST
 
MU
 
LU
 
TE
 
SK
 
EY
 
OV
SEQ
CNF
SEQ
WRG
DIF
SPL
8F6 SGP.chr12_38  5108641 - 5116052 FWD 372bp / 2 1 0 0 0 0 0 0 0 1 1 0 0 0 0 1 0
8G1 SGP.chr12_88  7504819 - 7522392 FWD 309bp / 3 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
12D3 TS.chr12.14.010  13530624 - 13547716 FWD 474bp / 6 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
7D6 TS.chr12.23.016  22824044 - 22834524 REV 1602bp / 4 1 1 1 1 1 1 1 1 1 1 1 1 1 0 0 0
11E5 SGP.chr12_339  24683366 - 24688035 FWD 366bp / 4 2 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1
3E2 TS.chr12.25.022  24983095 - 24988405 FWD 570bp / 5 1 1 1 0 0 0 1 0 1 0 1 1 0 1 0 0
8B4 SGP.chr12_411  28163527 - 28187539 FWD 624bp / 2 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
5C2 SGP.chr12_461  31337012 - 31392012 FWD 540bp / 5 3 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1
3E3 TS.chr12.60.005  59465830 - 59469364 FWD 930bp / 4 2 1 1 0 1 1 1 0 1 1 1 1 1 1 0 0
11G6 TS.chr12.62.005  61267202 - 61279006 REV 345bp / 4 2 1 0 0 0 0 0 0 0 1 0 1 1 1 0 0
11C3 SGP.chr12_884  63348076 - 63449384 FWD 741bp / 5 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
11H1 SGP.chr12_916  64789499 - 64812460 FWD 867bp / 10 7 1 0 0 0 0 0 0 0 0 0 0 0 1 0 0
5C3 SGP.chr12_935  65950020 - 65952880 FWD 483bp / 2 1 1 1 0 1 1 1 0 1 1 1 1 1 1 0 0
1A6 SGP.chr12_1011  70604342 - 70783761 FWD 16110bp / 79 15 1 1 1 0 0 1 1 1 1 0 1 1 1 0 0
3E4 TS.chr12.78.016  77902789 - 77915054 REV 315bp / 4 2 0 0 0 0 0 0 1 1 1 0 0 0 1 0 0
11B3 SGP.chr12_1174  79222471 - 79229095 REV 348bp / 4 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
11F1 SGP.chr12_1231  80933105 - 80945626 REV 366bp / 2 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
3E5 TS.chr12.82.017  81691223 - 81696515 REV 789bp / 2 1 1 0 0 0 0 0 0 1 1 0 1 0 1 0 0
7E1 TS.chr12.83.001  82000755 - 82013663 REV 484bp / 4 1 0 0 0 1 0 0 0 1 1 1 1 1 0 1 0
8F5 SGP.chr12_1317  83917122 - 83934118 FWD 315bp / 2 1 0 0 0 0 0 0 0 1 0 0 0 0 0 1 0
5B6 SGP.chr12_1338  85195259 - 85220354 REV 183bp / 3 2 0 0 0 0 0 0 0 0 1 0 0 0 1 0 0
3E1 TS.chr12.100.010  99712031 - 99713696 FWD 276bp / 2 1 0 0 0 0 0 0 0 0 1 0 0 0 0 1 0
8B3 SGP.chr12_1571  100211068 - 100251913 REV 900bp / 3 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
6G4 SGP.chr12_1597  101347912 - 101357559 FWD 252bp / 2 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
11G1 SGP.chr12_1610  101828496 - 101892226 FWD 543bp / 4 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
5C1 SGP.chr12_1717  106740030 - 106788440 REV 624bp / 5 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 0
1B1 SGP.chr12_1918  114229389 - 114238321 FWD 428bp / 4 2 1 1 0 0 0 0 0 0 0 0 0 0 1 0 0
GENEVA
CODE
GENE
ID
GENE
LOCATION
CDS LEN
/ #EXONS
RTPCR
INTRON
BR HE KI TH LI ST MU LU TE SK EY OV SEQ
CNF
SEQ
WRG
DIF
SPL
 

TABLE COLUMNS DESCRIPTION

Here we describe what does contain each column in the previous table:

  • Geneva identifier: corresponds to an alphanumeric code for each single gene set of experiments.
  • Predicted gene identifier: the name of the given gene prediction as provided by the software. Both, this column and the previous one, are linked to a single browser page for each gene prediction that contains further information about it.
  • Gene location: the forward coordinates along the chromosome and the corresponding gene strand.
  • Length of the transcript and the number of exons.
  • The selected intron number.
  • Results on tissues: RT-PCR success on each of the mouse tissues tested in this experiment ("green" color meaning success and "red" color for failure). The tissues were: brain (BR), heart (HE), kidney (KI), thymus (TH), liver (LI), stomach (ST), muscle (MU), lung (LU), testis (TE), skin (SK), eye (EY) and ovary (OV).
  • Three extra columns summarizing RT-PCR results:
    • SEQ CNF : RT-PCR succeeded and the sequence of the predicted gene was confirmed.
    • SEQ WRG : the PCR product that was sequenced does not correspond to the predicted one (unspecific amplification).
    • DIF SPL : the RT-PCR determined a different splice site (i.e. an extra exon within the submitted intron).
    Real Positive Genes are those, and only those, having "1" in the "SEQ CNF" column.

 
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