| |
CHROMOSOME 13 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 |
| 12E6 |
TS.chr13.12.005 |
11527089 - 11532279 FWD |
498bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 8G2 |
SGP.chr13_147 |
16635221 - 16691852 REV |
537bp / 5 |
2 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
| 7E2 |
TS.chr13.22.023 |
21302212 - 21303785 REV |
357bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 8G3 |
SGP.chr13_419 |
29290339 - 29330994 REV |
459bp / 4 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
1 |
0 |
0 |
| 11B2 |
SGP.chr13_462 |
32203306 - 32282703 REV |
1617bp / 13 |
5 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 11H6 |
TS.chr13.33.005 |
32210923 - 32214906 REV |
318bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 11D3 |
SGP.chr13_519 |
35316417 - 35348705 FWD |
837bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 5D1 |
SGP.chr13_591 |
39797470 - 39858548 REV |
558bp / 5 |
3 |
0 |
0 |
0 |
1 |
1 |
1 |
1 |
1 |
0 |
1 |
0 |
0 |
1 |
0 |
0 |
| 1B4 |
SGP.chr13_746 |
49276793 - 49304256 REV |
570bp / 6 |
3 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
1 |
0 |
1 |
1 |
1 |
0 |
0 |
| 3F1 |
TS.chr13.55.001 |
54002395 - 54031823 FWD |
1800bp / 11 |
5 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 7E3 |
TS.chr13.55.006 |
54075674 - 54092288 REV |
525bp / 5 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
1 |
0 |
0 |
| 3F2 |
TS.chr13.68.012 |
67907456 - 67913174 REV |
522bp / 4 |
2 |
1 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
| 1B2 |
SGP.chr13_1288 |
75901600 - 76009873 REV |
1056bp / 8 |
7 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 5C4 |
SGP.chr13_1303 |
76356286 - 76419761 FWD |
849bp / 6 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 3F3 |
TS.chr13.79.013 |
78468118 - 78692259 REV |
17187bp / 83 |
32 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 5C5 |
SGP.chr13_1407 |
81682160 - 81687814 FWD |
444bp / 3 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 11A2 |
SGP.chr13_1464 |
88016941 - 88032532 REV |
822bp / 4 |
3 |
1 |
1 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
1 |
1 |
1 |
0 |
0 |
| 9B2 |
TS.chr13.89.007 |
88304484 - 88306556 FWD |
363bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 8B5 |
SGP.chr13_1527 |
91954560 - 91974333 REV |
306bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 7E4 |
TS.chr13.94.005 |
93141357 - 93150604 FWD |
531bp / 4 |
3 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
0 |
0 |
| 12B6 |
TS.chr13.95.005 |
94153555 - 94173642 FWD |
333bp / 3 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
1 |
1 |
0 |
0 |
| 11G5 |
SGP.chr13_1712 |
100977000 - 100987857 FWD |
309bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 1B3 |
SGP.chr13_1742 |
102544255 - 102607667 REV |
621bp / 4 |
2 |
0 |
1 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
1 |
1 |
0 |
0 |
| 3E6 |
TS.chr13.111.011 |
110298363 - 110301320 FWD |
429bp / 4 |
2 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 12E3 |
TS.chr13.111.028 |
110671112 - 110681000 FWD |
681bp / 5 |
3 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 5C6 |
SGP.chr13_1928 |
113003614 - 113036893 REV |
315bp / 4 |
3 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
0 |
0 |
0 |
1 |
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
