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CHROMOSOME 1 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 |
| 5F6 |
SGP.chr1_146 |
16381173 - 16385079 REV |
225bp / 3 |
2 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 1D1 |
SGP.chr1_225 |
20408759 - 20507453 REV |
2091bp / 12 |
7 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
| 5G3 |
SGP.chr1_232 |
20700569 - 20866891 REV |
5889bp / 36 |
27 |
0 |
0 |
1 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
1 |
0 |
1 |
0 |
0 |
| 9H2 |
SGP.chr1_302 |
26163218 - 26167025 FWD |
306bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 3A4 |
TS.chr1.38.007 |
37158765 - 37162902 REV |
399bp / 3 |
2 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 3A5 |
TS.chr1.41.007 |
40191257 - 40235482 REV |
939bp / 9 |
6 |
1 |
1 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
1 |
1 |
0 |
1 |
0 |
0 |
| 1D3 |
SGP.chr1_535 |
43212059 - 43214272 REV |
300bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 8C4 |
SGP.chr1_794 |
59977288 - 60016648 REV |
639bp / 5 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 3A6 |
TS.chr1.61.005 |
60138624 - 60141167 FWD |
357bp / 3 |
1 |
1 |
0 |
1 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
1 |
1 |
1 |
0 |
0 |
| 11C6 |
TS.chr1.61.006 |
60150133 - 60158773 FWD |
474bp / 3 |
2 |
1 |
1 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
1 |
1 |
1 |
0 |
0 |
| 11A4 |
SGP.chr1_869 |
63099286 - 63136090 FWD |
705bp / 4 |
2 |
1 |
0 |
1 |
0 |
1 |
0 |
0 |
1 |
1 |
1 |
1 |
1 |
0 |
1 |
0 |
| 5G5 |
SGP.chr1_882 |
63540137 - 63564393 FWD |
663bp / 4 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
0 |
| 7C5 |
TS.chr1.64.022 |
63886534 - 63890112 REV |
777bp / 4 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 3B1 |
TS.chr1.65.008 |
64251847 - 64294324 REV |
1131bp / 9 |
6 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
0 |
0 |
1 |
0 |
1 |
| 1D4 |
SGP.chr1_938 |
65754958 - 65782383 REV |
519bp / 7 |
4 |
1 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
1 |
0 |
0 |
| 3B2 |
TS.chr1.66.029 |
65754961 - 65768082 REV |
858bp / 8 |
3 |
1 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
0 |
| 9A3 |
SGP.chr1_993 |
70117175 - 70138717 REV |
417bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 5F5 |
SGP.chr1_1135 |
76918510 - 76955442 REV |
207bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 6H1 |
SGP.chr1_1164 |
78547233 - 78554678 REV |
204bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 3B3 |
TS.chr1.94.016 |
93456663 - 93462636 FWD |
711bp / 3 |
1 |
0 |
0 |
0 |
1 |
0 |
1 |
0 |
1 |
1 |
1 |
0 |
0 |
1 |
0 |
0 |
| 11A6 |
TS.chr1.107.019 |
106848605 - 106860382 FWD |
681bp / 4 |
2 |
1 |
1 |
0 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 9F2 |
SGP.chr1_1555 |
108761760 - 108777113 REV |
402bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 11H3 |
SGP.chr1_1754 |
129285185 - 129308855 REV |
435bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 1C6 |
SGP.chr1_1808 |
132365309 - 132375537 FWD |
450bp / 4 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
1 |
1 |
1 |
0 |
0 |
| 3A1 |
TS.chr1.133.013 |
132365396 - 132370621 FWD |
300bp / 4 |
2 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 5G1 |
SGP.chr1_1979 |
139725795 - 139730510 REV |
411bp / 3 |
2 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
1 |
| 8C2 |
SGP.chr1_2068 |
150057944 - 150082258 FWD |
327bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 7C3 |
TS.chr1.152.018 |
151982741 - 151992437 REV |
474bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
| 5G2 |
SGP.chr1_2189 |
158228322 - 158251640 FWD |
585bp / 5 |
3 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 9G2 |
SGP.chr1_2275 |
162843429 - 162879334 FWD |
333bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 3A2 |
TS.chr1.172.023 |
171930118 - 171936514 FWD |
558bp / 4 |
2 |
1 |
1 |
1 |
1 |
0 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 11B6 |
TS.chr1.175.015 |
174949788 - 174993865 FWD |
924bp / 3 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
1 |
0 |
1 |
0 |
0 |
| 8C3 |
SGP.chr1_2774 |
187910272 - 187941041 REV |
435bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 12G2 |
TS.chr1.191.001 |
190023459 - 190026646 FWD |
435bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 3A3 |
TS.chr1.191.003 |
190100000 - 190109815 FWD |
738bp / 4 |
3 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 5G4 |
SGP.chr1_2843 |
191357497 - 191472358 FWD |
789bp / 9 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
1 |
0 |
| 1D2 |
SGP.chr1_2879 |
192422302 - 192438482 REV |
672bp / 6 |
2 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
1 |
1 |
1 |
0 |
0 |
| 7C4 |
TS.chr1.197.019 |
196755642 - 196810467 REV |
330bp / 3 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
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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UPF
