Table 3 |
|||||
|
Set of selected tags, tag-mapping and experimental validation |
|||||
|
ID |
Matches to genome |
Bioinformatics mapping |
rSAGE mapping |
X. laevis homologue |
Validation |
|
|
|||||
|
DV01 |
23 |
pintallavis |
pintallavis |
pintallavis |
Positive control |
|
DV02 |
14 |
3 EST clusters |
- |
ND |
ND |
|
DV03 |
10 |
vent1.1 |
- |
vent-1.1 |
Positive control |
|
DV04 |
26 |
No transcript |
Scaffold_19023: 2428-2444 |
Not found |
In situ |
|
DV05 |
1,482 |
6 transcripts |
Cluster Str. 39849 |
Not found |
PCR and in situ |
|
DV06 |
2 |
goosecoid |
goosecoid |
goosecoid |
Positive control |
|
DV07 |
1 |
zcsl-2 |
zcsl-2 |
LOC496356 |
False positive |
|
DV08 |
82 |
LOC496648/ubadc1 |
ubadc1 |
MGC115132 |
False positive |
|
DV09 |
20 |
sox11 |
sox11 |
sox11 |
In situ |
|
DV10 |
7 |
admp |
admp |
admp |
Positive control |
|
DV11 |
3 |
LOC100124861 |
- |
MGC82245 |
False positive |
|
DV12 |
9 |
LOC549498 |
LOC549498 |
MGC115377 |
In situ |
|
DV13 |
12 |
Id2 |
id2 |
id2 |
PCR and in situ |
|
DV14 |
10 |
No transcript |
Cluster Str.3968 |
MGC82755 |
False positive |
|
DV15 |
11 |
vent1.2 |
- |
vent1.2 |
Positive control |
|
DV16 |
3 |
MGC147163 |
MGC147163 |
MGC81848 |
PCR and in situ |
|
DV17 |
11 |
Str.45862/Str.40022 |
Str.45862/Str.40022 |
Not found |
PCR |
|
DV18 |
68 |
LOC548724 |
LOC548724 |
MGC116509 |
In situ |
|
DV22 |
9 |
smagp |
ND |
mitotic phosphoprotein 22 |
PCR and in situ |
|
DV25 |
27 |
cyclin A2 |
ND |
MGC130969 |
False positive |
|
DV38 |
25 |
nap1l1 |
ND |
nap1 |
PCR and in situ |
|
|
|||||
|
Summary of the tag-mapping and experimental validation of selected tags. Dashes (-) indicate rSAGE failed to provide a longer and specific sequence. ND, not determined. |
|||||
|
Faunes et al. Genome Biology 2009 10:R15 doi:10.1186/gb-2009-10-2-r15 |
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