Table 2 |
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|
X-box comparisons in promoters of dRFX regulated genes, between Drosophila melanogaster and Drosophila pseudoobscura |
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|
D. melanogaster |
D. pseudoobscura |
D. melanogaster |
D. pseudoobscura |
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|
|
||||||||||||
|
No. of X-box |
No. of X-box |
|||||||||||
|
|
||||||||||||
|
Strand |
Strand |
Conserved blocks around X-box† |
||||||||||
|
|
||||||||||||
|
Gene ID |
+ |
- |
Gene ID |
+ |
- |
No. of conserved X-box* |
X-box |
Dist. |
X-box |
Dist. |
100 bp |
25 bp |
|
|
||||||||||||
|
Genes down regulated in dRfx mutant |
||||||||||||
|
CG1126-PA |
2 |
4 |
GA10872-PA |
2 |
1 |
1‡ |
GTTGCC T AGCAAC |
66 |
GTTGCC T AGCAAC |
91 |
- |
+ |
|
CG3259-PA |
4 |
4 |
GA17011-PA |
2 |
2 |
1‡ |
GTTGCC AG GACAAC |
81 |
GTTGTC AG GACAAC |
96 |
- |
+ |
|
CG3769-PA |
2 |
3 |
GA17674-PA |
4 |
3 |
1‡ |
GTTGCT AGT AGCAAC |
71 |
GTTGCC AG GACAAC |
56 |
- |
+ |
|
CG4525-PA |
2 |
3 |
GA18233-PA |
1 |
1 |
1‡ |
GTTGCC A AGCGAC |
134 |
GTTGCC A AGCGAC |
239 |
+ |
+ |
|
CG8853-PA |
2 |
4 |
GA21369-PA |
1 |
5 |
1‡ |
GTTACC TT GGCGAC |
87 |
GTTACC AT GGAAAC |
110 |
- |
+ |
|
CG9227-PA |
5 |
1 |
GA21627-PA |
3 |
1 |
1‡ |
GTTACT TT GACAAC |
119 |
GTTGCC AG AGCAAC |
146 |
+ |
+ |
|
CG9595-PA |
3 |
2 |
GA21901-PA |
3 |
2 |
1‡ + 2 |
GTTGCC G GGCAAC |
126 |
GTTGTC CG GGCAAC |
141 |
+ |
+ |
|
ATTTTT GTT AGCAAC |
264 |
ACTTTT GC AAAAAC |
699 |
- |
+ |
|||||||
|
GCTGTT ACA AGAGAC |
2,969 |
GCTGCT GCA GGAAAC |
2,671 |
NA |
NA |
|||||||
|
CG12548-PA |
7 |
2 |
GA11690-PA |
2 |
4 |
2 |
ATCACC AA GGCAAC |
2,335 |
ATCACC TT GGAAAC |
868 |
- |
- |
|
GCCTTT C GGAGAC |
2,833 |
GCCGCT T GATGAC |
2,638 |
- |
- |
|||||||
|
CG13178-PA |
4 |
2 |
GA12098-PA |
5 |
4 |
1 |
GCCGTT AGC AAGAAC |
2,551 |
GCCACC AGG AAAAAC |
2,106 |
NA |
NA |
|
CG13809-PA |
1 |
2 |
GA12544-PA |
2 |
2 |
1‡ |
GTTGCC AC AACAAC |
123 |
GTTGCC AC AACAAC |
103 |
+ |
+ |
|
CG15161-PA |
2 |
1 |
GA13541-PA |
4 |
2 |
2‡ |
GTTGTC AG GACGAC |
321 |
GTTGTC AA GACAAC |
311 |
- |
- |
|
GTTGTC AG GACGAC |
321 |
GTTTTT GCA GGCAAC |
391 |
- |
- |
|||||||
|
CG30441-PA |
1 |
3 |
GA15848-PA |
3 |
1 |
1‡ |
GTTGTC AAT AGCAAC |
60 |
GTTGTC TGT GACAAC |
122 |
- |
- |
|
CG17599-PA |
1 |
5 |
GA14573-PA |
1 |
1 |
1‡ |
GTTACC T AGCAAC |
141 |
GTTGCC T GGCAAC |
206 |
- |
- |
|
CG18631-PA |
2 |
2 |
GA15024-PA |
6 |
1 |
1‡ |
GTTGCC CAT GGCAAC |
2,731 |
GTTGCC GTT AGCAAC |
2,633 |
- |
+ |
|
CG15666-PA |
3 |
3 |
GA13881-PA |
2 |
3 |
1‡ |
GTTGCC AA GGCAAC |
88 |
GTGGCC AT GGCAAC§ |
5 |
- |
- |
|
CG14870-PA |
1 |
1 |
GA13310-PA |
1 |
1 |
1‡ |
GTCTCC CG GGCAAC |
-22 |
GTATCC TG GGCAAC§ |
-6 |
+ |
+ |
|
CG1399-PB |
3 |
3 |
GA12678-PA |
3 |
0 |
0 |
||||||
|
CG5142-PA |
3 |
2 |
GA18687-PA |
2 |
1 |
0 |
||||||
|
CG9333-PA |
4 |
1 |
GA21709-PA |
2 |
1 |
0 |
||||||
|
CG9398-PA |
2 |
2 |
GA21760-PA |
3 |
3 |
0 |
||||||
|
CG11048-PA |
1 |
0 |
GA10726-PA |
5 |
4 |
0 |
||||||
|
CG13691-PA |
1 |
1 |
GA12462-PA |
1 |
1 |
0 |
||||||
|
CG14367-PA |
0 |
3 |
GA12937-PA |
3 |
3 |
0 |
||||||
|
Invariantly expressed genes in dRfx mutant |
||||||||||||
|
CG5195-PA |
0 |
4 |
GA18727-PA |
3 |
4 |
0 |
||||||
|
CG5359-PA |
4 |
4 |
GA17011-PA |
2 |
1 |
1‡ |
GTTATT CGT GGTGAC |
141 |
GTTGTT G AGGAAC |
51 |
- |
- |
|
CG6504-PA |
3 |
0 |
GA19567-PA |
6 |
4 |
0 |
||||||
|
CG6560-PA |
3 |
0 |
GA19685-PA |
0 |
2 |
0 |
||||||
|
CG7161-PA |
2 |
5 |
GA20145-PA |
0 |
3 |
0 |
||||||
|
CG9710-PA |
2 |
0 |
GA21982-PA |
1 |
0 |
0 |
||||||
|
CG10642-PA |
4 |
2 |
GA10463-PA |
1 |
3 |
1‡ |
GTCGTT TAA GGAAAC |
1,041 |
GTTGTC ATG AGTAAC |
1,226 |
- |
+ |
|
CG11755-PA |
1 |
5 |
GA11176-PA |
2 |
1 |
1 |
ACCGCC CAG AAGAAC |
2,418 |
ACTACC GT GAAAAC |
1,576 |
NA |
NA |
|
CG11237-PA |
3 |
2 |
GA10856-PA |
1 |
2 |
0 |
||||||
|
CG11759-PA |
1 |
3 |
GA11178-PA |
3 |
2 |
0 |
||||||
|
CG11838-PA |
3 |
0 |
GA11225-PA |
3 |
4 |
0 |
||||||
|
CG31249-PA |
1 |
1 |
GA16123-PA |
1 |
1 |
0 |
||||||
|
CG32392-PA |
4 |
2 |
GA16867-PA |
3 |
3 |
0 |
||||||
|
|
||||||||||||
|
*RYYNYYN[1-3]RRNRAC. Dist., distance upstream of the ATG. †The percentage of identities of either 100 bp or 25 bp sequence blocks around the X-box was estimated by Vista comparison as positive (+) if identities are above 50%, or negative (-) if below 50%. ‡Palindrome. §The X-box fits the more degenerated consensusRYNNYYN[1-3]RRNRAC. NA, not applicable because of nearby coding sequence environment or gap in the sequences. |
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|
Laurençon et al. Genome Biology 2007 8:R195 doi:10.1186/gb-2007-8-9-r195 |
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