Supplementary Materials for Guigó et al (2003)
PNAS, 100(3):1140-1145 [ Abstract ]
  IMIM * UPF * CRG * GRIB HOME DATASETS Mouse/Human GP Chr7
   
CHROMOSOME 7 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
6D6 SGP.chr7_420  17509567 - 17515399 REV 2046bp / 7 5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
4F6 TS.chr7.20.015  19430942 - 19436819 FWD 786bp / 5 4 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1
4G1 TS.chr7.22.018  21269574 - 21393904 REV 14445bp / 106 24 1 0 0 1 0 1 1 0 1 1 1 1 1 0 0
6E1 SGP.chr7_670  23249814 - 23262050 FWD 1590bp / 3 2 0 0 0 1 0 0 0 0 1 0 1 0 1 0 0
11A5 SGP.chr7_751  26838525 - 26840910 REV 351bp / 2 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
9A1 TS.chr7.30.017  29751950 - 29756057 FWD 330bp / 2 1 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0
9D5 SGP.chr7_960  33519496 - 33521777 FWD 387bp / 2 1 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0
6D1 SGP.chr7_1100  36009144 - 36017564 FWD 411bp / 3 2 1 0 0 0 0 0 0 0 1 0 1 0 1 0 1
4G2 TS.chr7.45.007  44675709 - 44701943 FWD 390bp / 4 2 1 0 0 0 0 0 0 0 1 0 1 0 1 0 0
1G3 SGP.chr7_1222  44693929 - 44726419 FWD 384bp / 5 2 1 0 0 0 0 0 0 0 1 0 1 0 1 0 0
4G3 TS.chr7.46.010  45683921 - 45705636 REV 1023bp / 6 5 1 1 1 1 1 1 1 1 1 1 1 1 1 0 0
12D5 TS.chr7.55.016  54896190 - 54937568 REV 579bp / 4 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
9B5 SGP.chr7_1396  59689465 - 59701761 FWD 477bp / 3 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
6D2 SGP.chr7_1405  59802647 - 59815928 FWD 585bp / 6 5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
11H4 SGP.chr7_1411  59935920 - 60030920 FWD 1077bp / 10 5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
7B5 SGP.chr7_1417  60232822 - 60248219 REV 300bp / 3 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
1G4 SGP.chr7_1518  66177291 - 66249772 FWD 777bp / 6 2 0 0 0 0 0 0 1 0 0 0 1 0 1 0 0
4G4 TS.chr7.67.004  66198695 - 66249121 FWD 372bp / 4 2 1 0 0 0 0 0 0 0 1 1 1 0 1 0 0
6D3 SGP.chr7_1520  66322513 - 66368375 FWD 312bp / 3 2 0 0 0 0 0 0 0 0 1 0 0 0 0 1 0
9B1 TS.chr7.70.004  69169327 - 69184591 FWD 1566bp / 13 10 1 1 1 1 1 1 1 1 1 1 1 1 1 0 0
6D4 SGP.chr7_2447  109718411 - 109735166 REV 1827bp / 11 2 0 0 0 0 0 0 0 1 1 0 0 1 1 0 0
8B1 TS.chr7.111.008  110260459 - 110265918 FWD 435bp / 3 1 0 0 0 0 0 0 1 0 1 0 0 0 1 0 1
1G5 SGP.chr7_2543  115731424 - 115935167 REV 1053bp / 9 6 0 1 0 0 0 0 0 1 1 0 0 0 1 0 0
4F4 TS.chr7.116.015  115742710 - 115777008 REV 441bp / 4 2 1 1 0 1 1 0 0 1 1 1 1 1 1 0 0
9C5 SGP.chr7_2624  117580646 - 117584606 REV 495bp / 2 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
4F5 TS.chr7.122.009  121347927 - 121362847 FWD 945bp / 6 1 1 1 1 1 1 1 0 1 1 1 1 1 1 0 0
6D5 SGP.chr7_2789  124891797 - 124926340 REV 1467bp / 3 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
1G6 SGP.chr7_2799  125526414 - 125541074 REV 681bp / 3 2 0 0 1 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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