| |
CHROMOSOME 3 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 |
| 9C2 |
TS.chr3.9.016 |
8810147 - 8818828 REV |
729bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 9F3 |
SGP.chr3_143 |
14710103 - 14742686 REV |
528bp / 4 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
1 |
0 |
| 6A2 |
SGP.chr3_174 |
17579069 - 17596535 REV |
462bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
| 8D3 |
SGP.chr3_185 |
18474226 - 18482537 REV |
327bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
| 1E3 |
SGP.chr3_241 |
23996597 - 24072750 REV |
594bp / 6 |
4 |
1 |
0 |
? |
1 |
1 |
0 |
0 |
1 |
0 |
0 |
1 |
0 |
1 |
0 |
0 |
| 12E4 |
TS.chr3.38.008 |
37290114 - 37304585 REV |
1053bp / 5 |
4 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 7H4 |
TS.chr3.39.012 |
38498268 - 38509553 FWD |
606bp / 4 |
1 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
1 |
1 |
0 |
0 |
0 |
| 11D4 |
SGP.chr3_510 |
41359807 - 41416943 FWD |
498bp / 4 |
3 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
1 |
0 |
1 |
0 |
| 9H3 |
SGP.chr3_524 |
42170452 - 42180971 FWD |
423bp / 3 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 8D4 |
SGP.chr3_612 |
52163003 - 52204814 FWD |
384bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 1E4 |
SGP.chr3_644 |
53926999 - 53943358 FWD |
855bp / 10 |
4 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 6A4 |
SGP.chr3_702 |
58181332 - 58216346 REV |
1629bp / 6 |
5 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 4C3 |
TS.chr3.65.006 |
64347883 - 64350711 REV |
375bp / 2 |
1 |
1 |
0 |
0 |
0 |
0 |
1 |
0 |
1 |
1 |
0 |
1 |
0 |
1 |
0 |
1 |
| 7H5 |
TS.chr3.71.014 |
70503725 - 70509209 FWD |
414bp / 4 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 6A5 |
SGP.chr3_919 |
75940868 - 76025720 REV |
1266bp / 9 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 11C4 |
SGP.chr3_1262 |
93885730 - 93916957 FWD |
588bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
1 |
0 |
0 |
0 |
1 |
0 |
| 8D2 |
SGP.chr3_1400 |
97329046 - 97339217 FWD |
369bp / 2 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
1 |
0 |
| 7H2 |
TS.chr3.101.014 |
100623703 - 100626727 REV |
318bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
0 |
| 7A1 |
SGP.chr3_1786 |
119904510 - 119926434 REV |
450bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 1E2 |
SGP.chr3_2007 |
133092049 - 133125832 FWD |
822bp / 4 |
3 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 9G3 |
SGP.chr3_2165 |
144380421 - 144381993 REV |
327bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
1 |
1 |
0 |
0 |
1 |
0 |
| 7A2 |
SGP.chr3_2176 |
144658653 - 144705162 FWD |
438bp / 4 |
3 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 7H3 |
TS.chr3.146.028 |
145787595 - 145792196 REV |
507bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 4C1 |
TS.chr3.148.010 |
147195976 - 147215253 REV |
231bp / 3 |
1 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
1 |
0 |
0 |
1 |
0 |
0 |
| 6A3 |
SGP.chr3_2312 |
151889537 - 151903051 FWD |
285bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 4C2 |
TS.chr3.153.026 |
152895092 - 152921663 REV |
882bp / 6 |
3 |
1 |
1 |
1 |
1 |
0 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
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.
|
|
UPF
