PET-1
PET-1 Promoter
According to TESS (reference below)
There are the following potential RAR sites in the mouse PET-1 promoter:
(Note: substract from 2000 to get upstream position)
- RAR-alpha at 1061-1069 (La/Len = 1.53)
- RAR-beta at 599-604 (1.69)
- RAR-beta at 1596-1604 (1.71)
- RAR-beta at 1926-1931 (1.71)
- RXR-alpha/RXR-beta at 1595-1601 (2.0)
- RXR-alpha/RXR-beta at 1926-1931 (2.0)
Hi probability of ER-alpha binding (all La/Len = 1.9 - 2.0) at:
- 599-603
- 1065-1069
- 1597-1601
- 1867-1871
- 1926-1030
ER/SP-1 binding (all La/Len = 2.0) at:
- 990-994
- 1243-1247
Found transcription factor binding sites using TESS:
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
1 ggggaagggg aaggggaagg ggaaggggaa ggggagagga ggagttagtg agtgaataac
61 actgggcctg ggtggttcat aggcgatctg ggaaaggatg ctcacccaca ctcactccaa
121 actctaacta cccaggcttc caccttcatt tctccattct gccaaggaca cggaaatctc
181 ctgcttgcct gacagaggac caagatatca aggcattctc ccacaaatga ctttgttctg
241 gaaataccta caactatcct cctgaaagtt ttcttttttt tttctttttt tttttaaaga
301 tttatttatt atatgtaagt acactgtagc tgtcttcaga cactccagaa gagggagtca
361 gatctcgtta cggatggttg tgagccacca tgtggttgct gggatttgaa ctctggacct
421 tcggaagagc agtcgggtgc tcttacccac tgagccatct caccagcccc tgaaagtttt
481 cttatgaggg gagacatcta aggtcgcttc ccagacagca ggtttttaga aaagaaaaca
541 gagataagga ttacaagtgc ctctgaatgg tgagccctga cgcctcagaa agatcacttg
601 acccacttcc cagacctcac aaggctggat tcaggatgaa aggtctgggt ccctcctttt
661 acccctcact ctgaagcgca aaggaaatgt ggaggcaacc cggccctggt ccttttgtct
721 tagtaggtaa agcacctaat ggccttccat caaatcttcc ctagatttag ccatagaccg
781 gcctatcctc tctcggacca gcagagggcg cgcaccacta gcgggaaaag agtggaccag
841 tcgccaaacg cagtccgaga aagcctttaa agagcagagg catctatcta acagggagga
901 tcagagccat agctactggg agccagcagg agatttgtga aggaaagtga gaggtggtct
961 tgggagaatg gcacgaagca gggagtggag gcggggaaaa gtattaaatt aggataaaat
1021 ggagagtggc tgatgcaaga agtttcggat ggaatggagg aaaaggtcac gggttgttgg
1081 atgcgatgct gcgaggagat ggcagaatgg cgagatggag gaaggcgagt acttgttgga
1141 ttgaaagttg gagtgaaatg ggatggggtg agggtgagag aggcaccctc tcaggatctc
1201 acccactggg tcctcctcac tccaggccac cccacgcttg cttgccctca cacttggagg
1261 ccttttgctc tgcctgcctg agcctttaac cttctactct ccctgaaggg gccctggtgc
1321 agcaatgaac ggacagagga ggcagtaggg cgcttgggag ctttaatggg gctgaaaggg
1381 atatatacag gctggggtcc ttgggccaga gtgtgatatg ggagaaaggg aagccagagt
1441 gttgatatag ggatggggaa cggcagagat gtttatcgag gcttctcata tcccgaggaa
1501 ataggggagt gcgagaagcc ttgaggtact accttttgga gtgggttgtg ggagagagtc
1561 agaaaatgag gaccaagaaa atcccagaaa aataggggtc ataacgaggt gcaggggtgc
1621 aagtgagaaa agaaaaagac acgggagttc cagaatctgg agacttggaa gagaaaaatt
1681 aaagtgggag cccatgcacc cttcctgggg cgaagataac ggggcctgga agcctgatgt
1741 tcaaggaaga cctcgggggt ttcccatcct ttcttccctg ggctgggcgc ggctgctgca
1801 atgaaatctg tgttaaagga acgtcgggga aagcttcggg gctcctccga ggatgaggat
1861 gggattggtc actgggccat gtgagagagg ccccgctgta cccggccgtc cccgtctagt
1921 gataatgacc ccccaagtgc gaagctgccg ccactgcgcc gaagggcccg ggagggggct
1981 gcaagcccgg ggtggggtag
Searched using TESS: Combined search query and defaults, on September 30, 2007
Schug, Jonathan, Using TESS to Predict Transcription Factor Binding Sites in DNA Sequence, Wiley’s Current Protocols in Bioinformatics, ed. Baxevanis, A. D. J. Wiley & sons, 2003. Chapter 5
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