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=PET-1 Promoter=
note at 1172 in the sequence below (i.e -828 from mRNA start) there appears to be an RAR element: '''gggtga'''gagaggca'''ccctctc'''
BLAST of mus FEV mRNA ( NM_153111) leads to 100% homology with mus chromosome 1 (AC104542.10) bases 38140 to 40385
So took 2000 bases upstream of transcription start AC104542.10: 36140 – 38149
<tt>
1 ggggaagggg aaggggaagg ggaaggggaa ggggagagga ggagttagtg agtgaataac <br/>
61 actgggcctg ggtggttcat aggcgatctg ggaaaggatg ctcacccaca ctcactccaa <br/>
121 actctaacta cccaggcttc caccttcatt tctccattct gccaaggaca cggaaatctc <br/>
181 ctgcttgcct gacagaggac caagatatca aggcattctc ccacaaatga ctttgttctg <br/>
241 gaaataccta caactatcct cctgaaagtt ttcttttttt tttctttttt tttttaaaga <br/>
301 tttatttatt atatgtaagt acactgtagc tgtcttcaga cactccagaa gagggagtca <br/>
361 gatctcgtta cggatggttg tgagccacca tgtggttgct gggatttgaa ctctggacct <br/>
421 tcggaagagc agtcgggtgc tcttacccac tgagccatct caccagcccc tgaaagtttt <br/>
481 cttatgaggg gagacatcta aggtcgcttc ccagacagca ggtttttaga aaagaaaaca <br/>
541 gagataagga ttacaagtgc ctctgaatgg tgagccctga cgcctcagaa agatcacttg <br/>
601 acccacttcc cagacctcac aaggctggat tcaggatgaa aggtctgggt ccctcctttt <br/>
661 acccctcact ctgaagcgca aaggaaatgt ggaggcaacc cggccctggt ccttttgtct <br/>
721 tagtaggtaa agcacctaat ggccttccat caaatcttcc ctagatttag ccatagaccg <br/>
781 gcctatcctc tctcggacca gcagagggcg cgcaccacta gcgggaaaag agtggaccag <br/>
841 tcgccaaacg cagtccgaga aagcctttaa agagcagagg catctatcta acagggagga <br/>
901 tcagagccat agctactggg agccagcagg agatttgtga aggaaagtga gaggtggtct <br/>
961 tgggagaatg gcacgaagca gggagtggag gcggggaaaa gtattaaatt aggataaaat <br/>
1021 ggagagtggc tgatgcaaga agtttcggat ggaatggagg aaaaggtcac gggttgttgg <br/>
1081 atgcgatgct gcgaggagat ggcagaatgg cgagatggag gaaggcgagt acttgttgga <br/>
1141 ttgaaagttg gagtgaaatg ggatggggtg a'''gggtga'''gag aggca'''ccctc tc'''aggatctc <br/>
1201 acccactggg tcctcctcac tccaggccac cccacgcttg cttgccctca cacttggagg <br/>
1261 ccttttgctc tgcctgcctg agcctttaac cttctactct ccctgaaggg gccctggtgc <br/>
1321 agcaatgaac ggacagagga ggcagtaggg cgcttgggag ctttaatggg gctgaaaggg <br/>
1381 atatatacag gctggggtcc ttgggccaga gtgtgatatg ggagaaaggg aagccagagt <br/>
1441 gttgatatag ggatggggaa cggcagagat gtttatcgag gcttctcata tcccgaggaa <br/>
1501 ataggggagt gcgagaagcc ttgaggtact accttttgga gtgggttgtg ggagagagtc <br/>
1561 agaaaatgag gaccaagaaa atcccagaaa aataggggtc ataacgaggt gcaggggtgc <br/>
1621 aagtgagaaa agaaaaagac acgggagttc cagaatctgg agacttggaa gagaaaaatt <br/>
1681 aaagtgggag cccatgcacc cttcctgggg cgaagataac ggggcctgga agcctgatgt <br/>
1741 tcaaggaaga cctcgggggt ttcccatcct ttcttccctg ggctgggcgc ggctgctgca <br/>
1801 atgaaatctg tgttaaagga acgtcgggga aagcttcggg gctcctccga ggatgaggat <br/>
1861 gggattggtc actgggccat gtgagagagg ccccgctgta cccggccgtc cccgtctagt <br/>
1921 gataatgacc ccccaagtgc gaagctgccg ccactgcgcc gaagggcccg ggagggggct <br/>
1981 gcaagcccgg ggtggggtag <br/>
</tt>
Searched using TESS: Combined search query and defaults
Chapter 5 of Wiley’s Current Protocols in Bioinformatics
TESS: Transcription Element Search Software on the WWW',
Jonathan Schug and G. Christian Overton,
Technical Report CBIL-TR-1997-1001-v0.0
Computational Biology and Informatics Laboratory
School of Medicine
University of Pennsylvania, 1997
URL: http://www.cbil.upenn.edu/tess
but it crashed...
note at 1172 in the sequence below (i.e -828 from mRNA start) there appears to be an RAR element: '''gggtga'''gagaggca'''ccctctc'''
BLAST of mus FEV mRNA ( NM_153111) leads to 100% homology with mus chromosome 1 (AC104542.10) bases 38140 to 40385
So took 2000 bases upstream of transcription start AC104542.10: 36140 – 38149
<tt>
1 ggggaagggg aaggggaagg ggaaggggaa ggggagagga ggagttagtg agtgaataac <br/>
61 actgggcctg ggtggttcat aggcgatctg ggaaaggatg ctcacccaca ctcactccaa <br/>
121 actctaacta cccaggcttc caccttcatt tctccattct gccaaggaca cggaaatctc <br/>
181 ctgcttgcct gacagaggac caagatatca aggcattctc ccacaaatga ctttgttctg <br/>
241 gaaataccta caactatcct cctgaaagtt ttcttttttt tttctttttt tttttaaaga <br/>
301 tttatttatt atatgtaagt acactgtagc tgtcttcaga cactccagaa gagggagtca <br/>
361 gatctcgtta cggatggttg tgagccacca tgtggttgct gggatttgaa ctctggacct <br/>
421 tcggaagagc agtcgggtgc tcttacccac tgagccatct caccagcccc tgaaagtttt <br/>
481 cttatgaggg gagacatcta aggtcgcttc ccagacagca ggtttttaga aaagaaaaca <br/>
541 gagataagga ttacaagtgc ctctgaatgg tgagccctga cgcctcagaa agatcacttg <br/>
601 acccacttcc cagacctcac aaggctggat tcaggatgaa aggtctgggt ccctcctttt <br/>
661 acccctcact ctgaagcgca aaggaaatgt ggaggcaacc cggccctggt ccttttgtct <br/>
721 tagtaggtaa agcacctaat ggccttccat caaatcttcc ctagatttag ccatagaccg <br/>
781 gcctatcctc tctcggacca gcagagggcg cgcaccacta gcgggaaaag agtggaccag <br/>
841 tcgccaaacg cagtccgaga aagcctttaa agagcagagg catctatcta acagggagga <br/>
901 tcagagccat agctactggg agccagcagg agatttgtga aggaaagtga gaggtggtct <br/>
961 tgggagaatg gcacgaagca gggagtggag gcggggaaaa gtattaaatt aggataaaat <br/>
1021 ggagagtggc tgatgcaaga agtttcggat ggaatggagg aaaaggtcac gggttgttgg <br/>
1081 atgcgatgct gcgaggagat ggcagaatgg cgagatggag gaaggcgagt acttgttgga <br/>
1141 ttgaaagttg gagtgaaatg ggatggggtg a'''gggtga'''gag aggca'''ccctc tc'''aggatctc <br/>
1201 acccactggg tcctcctcac tccaggccac cccacgcttg cttgccctca cacttggagg <br/>
1261 ccttttgctc tgcctgcctg agcctttaac cttctactct ccctgaaggg gccctggtgc <br/>
1321 agcaatgaac ggacagagga ggcagtaggg cgcttgggag ctttaatggg gctgaaaggg <br/>
1381 atatatacag gctggggtcc ttgggccaga gtgtgatatg ggagaaaggg aagccagagt <br/>
1441 gttgatatag ggatggggaa cggcagagat gtttatcgag gcttctcata tcccgaggaa <br/>
1501 ataggggagt gcgagaagcc ttgaggtact accttttgga gtgggttgtg ggagagagtc <br/>
1561 agaaaatgag gaccaagaaa atcccagaaa aataggggtc ataacgaggt gcaggggtgc <br/>
1621 aagtgagaaa agaaaaagac acgggagttc cagaatctgg agacttggaa gagaaaaatt <br/>
1681 aaagtgggag cccatgcacc cttcctgggg cgaagataac ggggcctgga agcctgatgt <br/>
1741 tcaaggaaga cctcgggggt ttcccatcct ttcttccctg ggctgggcgc ggctgctgca <br/>
1801 atgaaatctg tgttaaagga acgtcgggga aagcttcggg gctcctccga ggatgaggat <br/>
1861 gggattggtc actgggccat gtgagagagg ccccgctgta cccggccgtc cccgtctagt <br/>
1921 gataatgacc ccccaagtgc gaagctgccg ccactgcgcc gaagggcccg ggagggggct <br/>
1981 gcaagcccgg ggtggggtag <br/>
</tt>
Searched using TESS: Combined search query and defaults
Chapter 5 of Wiley’s Current Protocols in Bioinformatics
TESS: Transcription Element Search Software on the WWW',
Jonathan Schug and G. Christian Overton,
Technical Report CBIL-TR-1997-1001-v0.0
Computational Biology and Informatics Laboratory
School of Medicine
University of Pennsylvania, 1997
URL: http://www.cbil.upenn.edu/tess
but it crashed...