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CHROMOSOME 4 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 |
| 6B5 |
SGP.chr4_66 |
8461162 - 8464366 REV |
219bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 1E6 |
SGP.chr4_224 |
18392822 - 18450922 REV |
762bp / 7 |
6 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 1F1 |
SGP.chr4_424 |
32307577 - 32419147 FWD |
15915bp / 97 |
43 |
1 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
| 12H6 |
TS.chr4.53.007 |
52499790 - 52505945 FWD |
951bp / 3 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 9D4 |
SGP.chr4_869 |
58630581 - 58639976 FWD |
1161bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
0 |
0 |
0 |
1 |
0 |
| 8A1 |
TS.chr4.60.019 |
59814496 - 59816375 FWD |
465bp / 3 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 12H4 |
TS.chr4.81.009 |
80305550 - 80307592 REV |
372bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 9A4 |
SGP.chr4_1194 |
81627481 - 81628957 FWD |
330bp / 2 |
1 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
| 1E5 |
SGP.chr4_1209 |
81827742 - 81844506 REV |
405bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 6A6 |
SGP.chr4_1327 |
88169605 - 88202049 REV |
546bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
? |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 7A3 |
SGP.chr4_1374 |
90903745 - 90924944 REV |
216bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 7A4 |
SGP.chr4_1498 |
97435479 - 97437641 FWD |
162bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 6B1 |
SGP.chr4_1508 |
98210448 - 98299606 FWD |
801bp / 8 |
4 |
1 |
1 |
1 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 4C4 |
TS.chr4.103.012 |
102705687 - 102732666 FWD |
921bp / 11 |
4 |
1 |
0 |
1 |
1 |
1 |
0 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 12F4 |
TS.chr4.105.008 |
104324560 - 104334994 REV |
1299bp / 10 |
4 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
0 |
1 |
0 |
0 |
| 4C5 |
TS.chr4.113.003 |
112365270 - 112371577 FWD |
471bp / 3 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 6B2 |
SGP.chr4_1754 |
112562676 - 112579184 REV |
291bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 9B4 |
SGP.chr4_2001 |
120932167 - 120977018 REV |
378bp / 5 |
3 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 6B3 |
SGP.chr4_2022 |
121556112 - 121614146 REV |
942bp / 5 |
4 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 11E4 |
SGP.chr4_2073 |
122784035 - 122813999 FWD |
405bp / 4 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 4C6 |
TS.chr4.134.007 |
133274212 - 133292298 FWD |
675bp / 6 |
4 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
1 |
1 |
1 |
0 |
0 |
1 |
0 |
0 |
| 12G4 |
TS.chr4.145.002 |
144038453 - 144042156 FWD |
513bp / 5 |
4 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 4D1 |
TS.chr4.147.015 |
146526702 - 146544875 REV |
1782bp / 6 |
4 |
1 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
1 |
0 |
1 |
0 |
0 |
| 6B4 |
SGP.chr4_2686 |
146532744 - 146541677 REV |
1551bp / 4 |
2 |
1 |
1 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 7H6 |
TS.chr4.150.005 |
149143192 - 149151123 FWD |
585bp / 4 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 4D2 |
TS.chr4.150.023 |
149612625 - 149625093 FWD |
459bp / 4 |
2 |
1 |
1 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 9C4 |
SGP.chr4_2764 |
149938739 - 149984207 REV |
990bp / 5 |
2 |
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 |
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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
