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CHROMOSOME 5 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 |
| 8E1 |
SGP.chr5_76 |
9613308 - 9623327 REV |
408bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
| 8A3 |
TS.chr5.24.014 |
23439109 - 23441083 REV |
303bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 1F5 |
SGP.chr5_296 |
26809765 - 26905774 FWD |
3357bp / 19 |
16 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 4E2 |
TS.chr5.27.020 |
26900479 - 26905771 FWD |
465bp / 4 |
2 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 4E3 |
TS.chr5.34.019 |
33764465 - 33794887 FWD |
1515bp / 10 |
3 |
1 |
1 |
0 |
0 |
0 |
1 |
0 |
1 |
1 |
1 |
1 |
0 |
1 |
0 |
0 |
| 6C2 |
SGP.chr5_469 |
36038002 - 36109130 FWD |
3474bp / 7 |
5 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 7A5 |
SGP.chr5_515 |
40222920 - 40241319 FWD |
342bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 7A6 |
SGP.chr5_516 |
40337044 - 40384518 FWD |
909bp / 7 |
3 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 4E4 |
TS.chr5.44.003 |
43130347 - 43141724 REV |
891bp / 7 |
2 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 1F6 |
SGP.chr5_559 |
44418879 - 44429230 FWD |
699bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 4E5 |
TS.chr5.52.006 |
51468911 - 51475256 REV |
630bp / 7 |
4 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 4E6 |
TS.chr5.64.001 |
63000045 - 63010653 REV |
784bp / 4 |
2 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 9G4 |
SGP.chr5_812 |
66173078 - 66174751 FWD |
492bp / 2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
| 6C3 |
SGP.chr5_821 |
66471708 - 66484653 REV |
624bp / 4 |
3 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
| 7B1 |
SGP.chr5_831 |
67230124 - 67253442 FWD |
258bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 1G1 |
SGP.chr5_865 |
71638996 - 71679252 REV |
975bp / 8 |
3 |
1 |
0 |
1 |
1 |
1 |
1 |
0 |
1 |
0 |
0 |
1 |
0 |
1 |
0 |
0 |
| 8A4 |
TS.chr5.72.017 |
71689028 - 71692860 REV |
1092bp / 4 |
1 |
1 |
0 |
1 |
1 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
1 |
1 |
0 |
0 |
| 4F1 |
TS.chr5.96.018 |
95857105 - 95874236 FWD |
243bp / 2 |
1 |
1 |
0 |
0 |
1 |
0 |
1 |
0 |
1 |
1 |
1 |
0 |
1 |
1 |
0 |
0 |
| 1F2 |
SGP.chr5_1399 |
103956540 - 104009310 FWD |
789bp / 4 |
3 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 9E4 |
SGP.chr5_1410 |
104201932 - 104207633 FWD |
654bp / 4 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 11F4 |
SGP.chr5_1415 |
104242438 - 104246055 REV |
384bp / 3 |
2 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
| 4D3 |
TS.chr5.105.012 |
104538081 - 104541213 REV |
564bp / 5 |
3 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 8A2 |
TS.chr5.111.017 |
110421388 - 110432502 REV |
303bp / 3 |
2 |
1 |
1 |
0 |
0 |
0 |
0 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 6B6 |
SGP.chr5_1566 |
110947958 - 110951826 FWD |
543bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 1F3 |
SGP.chr5_1652 |
114106821 - 114177545 REV |
1263bp / 10 |
8 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
1 |
0 |
0 |
0 |
1 |
0 |
0 |
| 4D4 |
TS.chr5.115.004 |
114106824 - 114139790 REV |
885bp / 7 |
5 |
1 |
1 |
0 |
1 |
0 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 4D5 |
TS.chr5.120.004 |
119314703 - 119429253 FWD |
12783bp / 77 |
76 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
0 |
| 8D5 |
SGP.chr5_1942 |
130211636 - 130253291 REV |
633bp / 5 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 8D6 |
SGP.chr5_1943 |
130263121 - 130274632 REV |
738bp / 6 |
3 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 4D6 |
TS.chr5.140.021 |
139643792 - 139654670 FWD |
1416bp / 6 |
2 |
0 |
1 |
0 |
1 |
0 |
1 |
0 |
1 |
1 |
1 |
0 |
1 |
1 |
0 |
0 |
| 9F4 |
SGP.chr5_2181 |
139807053 - 139819381 REV |
1044bp / 5 |
3 |
0 |
0 |
0 |
1 |
0 |
0 |
0 |
1 |
1 |
1 |
0 |
0 |
1 |
0 |
0 |
| 6C1 |
SGP.chr5_2190 |
140693521 - 140748319 FWD |
255bp / 3 |
2 |
0 |
0 |
0 |
0 |
0 |
0 |
? |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
| 12A5 |
TS.chr5.142.013 |
141639804 - 141651721 FWD |
1500bp / 10 |
5 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
| 1F4 |
SGP.chr5_2329 |
147150192 - 147198340 FWD |
546bp / 5 |
3 |
1 |
1 |
1 |
1 |
0 |
1 |
1 |
1 |
1 |
1 |
1 |
0 |
1 |
0 |
0 |
| 4E1 |
TS.chr5.150.018 |
149763395 - 149769336 REV |
741bp / 4 |
2 |
1 |
0 |
0 |
0 |
0 |
0 |
0 |
0 |
1 |
0 |
0 |
1 |
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 |
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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
