Difference between revisions of "Part:BBa K3844001:Sequence, Features, and Subparts"

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==1. Function==
 
==1. Function==
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CCCTC-binding factor, otherwise known as (CTCF), is a transcription factor. It has numerous functions in synthetic biology, including but not limited to functioning as a transcriptional activator or an insulator protein. CTCF transcription factors can also call for other transcription factors while bound to these important entities known as “chromatin domain boundaries.”
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==2. Design Consideration==
 
Our project requires for the transcription factor to be dependent on the presence of VOCs. When researching the design of trimethylbenzene, the VOC that this transcription factor binds to, we needed to make sure that, hypothetically, everything would work based on our model. After checking through extensive research that our design would fit with this transcription factor, we chose it.
 
Our project requires for the transcription factor to be dependent on the presence of VOCs. When researching the design of trimethylbenzene, the VOC that this transcription factor binds to, we needed to make sure that, hypothetically, everything would work based on our model. After checking through extensive research that our design would fit with this transcription factor, we chose it.
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==2. Design==
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==3. Characterization==
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Sequence: GGAGGCCCTCCCACTCTCCTCTCGCACCCGCTTTTAGG
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TGGCCCTCTTCTAGGGCGGAGAGATCACCAAAAGCCGCTGAGCAAGGA
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CAGCCCTTCCAGTCGTCGCTCGCGGGCACGGAGCTGGGAGCGCGCGGG
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AACCGACCGGGCCTTACTCTGGGGCGGGCAGCTGTAAGACATTCGGAG
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GGCGGGTCGGGCCTGGCTGGGGCGGAGACTGGGCGGGGCCGGGCCCGG
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GAGCCTCCTCAGCCCCACTGGCTTGCCCCGCGCGCGCTTCCTCCAGCC
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ACCCCCACTTCCCCAACCCTGTACGGGTTCAGGGGGCCGGAGACAGCA
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GCTAGGGAATAAGGTCAAGCGGACTGGATCCGGCACCGCCCAGGGGCG
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GCGGCCTCCGCCCAGGAAGCCCCACCCAGCGGGAGCCAGGACGCCGCG
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GCGCCGGCAGAGCCCACGAGCGACCCGGCGAGGGCGCGTGCGGCGTGA
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CGACGCGACTCGCGGCGCGTCCCTGACGCCATCGCGCCCGCTTTTGAA
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AGTTGGCGCCCGGGGCCGCCTCCCATGCTGCCCTGCGCCAACCCCTCC
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CCTCACCTTTCCTCCCCCGCCCTCTACTCGCCGCCCGGCCGGTCCCCC
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CACCCGTCCCTTCCCTTATCAGCACCCGCGGCCCCGGCAGCGCCGACG
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CAGGCGCACTGCACCGCGCCGCCGCCATTTTGTGTCTGAGCCTGTGGA
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GCGATTAAACCGTGCGCGGAGCTGCTTCTTTGGCGGCAGCGGCGGCGG
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CGGTGGCCGGTGCGGACGCGCGGAGCTCGCCGGAGACGCCGGGTGGCC
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GGAGCCGTGGAGCGGCGGCGGAGCGGGCGCCGCGGGGGGTGTGGCGCG
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GAG
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==4. References==
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1. https://www.sciencedirect.com/topics/biochemistry-genetics-and-molecular-biology/transcription-factor-ctcf
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2.  Fu Y, Sinha M, Peterson CL, Weng Z (2008). "The insulator binding protein CTCF positions 20 nucleosomes around its binding sites across the human genome". PLOS Genetics. 4 (7): e1000138. doi:10.1371/journal.pgen.1000138. PMC 2453330. PMID 18654629.
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3. https://pubchem.ncbi.nlm.nih.gov/compound/1_2_4-Trimethylbenzene
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4. https://www.researchgate.net/publication/319293199_CCCTC-binding_factor_is_essential_to_the_maintenance_and_quiescence_of_hematopoietic_stem_cells_in_mice
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<span class='h3bb'>Sequence and Features</span>
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<partinfo>BBa_K3844001 SequenceAndFeatures</partinfo>

Latest revision as of 03:38, 22 October 2021

1. Function

CCCTC-binding factor, otherwise known as (CTCF), is a transcription factor. It has numerous functions in synthetic biology, including but not limited to functioning as a transcriptional activator or an insulator protein. CTCF transcription factors can also call for other transcription factors while bound to these important entities known as “chromatin domain boundaries.”

2. Design Consideration

Our project requires for the transcription factor to be dependent on the presence of VOCs. When researching the design of trimethylbenzene, the VOC that this transcription factor binds to, we needed to make sure that, hypothetically, everything would work based on our model. After checking through extensive research that our design would fit with this transcription factor, we chose it.

3. Characterization

Sequence: GGAGGCCCTCCCACTCTCCTCTCGCACCCGCTTTTAGG TGGCCCTCTTCTAGGGCGGAGAGATCACCAAAAGCCGCTGAGCAAGGA CAGCCCTTCCAGTCGTCGCTCGCGGGCACGGAGCTGGGAGCGCGCGGG AACCGACCGGGCCTTACTCTGGGGCGGGCAGCTGTAAGACATTCGGAG GGCGGGTCGGGCCTGGCTGGGGCGGAGACTGGGCGGGGCCGGGCCCGG GAGCCTCCTCAGCCCCACTGGCTTGCCCCGCGCGCGCTTCCTCCAGCC ACCCCCACTTCCCCAACCCTGTACGGGTTCAGGGGGCCGGAGACAGCA GCTAGGGAATAAGGTCAAGCGGACTGGATCCGGCACCGCCCAGGGGCG GCGGCCTCCGCCCAGGAAGCCCCACCCAGCGGGAGCCAGGACGCCGCG GCGCCGGCAGAGCCCACGAGCGACCCGGCGAGGGCGCGTGCGGCGTGA CGACGCGACTCGCGGCGCGTCCCTGACGCCATCGCGCCCGCTTTTGAA AGTTGGCGCCCGGGGCCGCCTCCCATGCTGCCCTGCGCCAACCCCTCC CCTCACCTTTCCTCCCCCGCCCTCTACTCGCCGCCCGGCCGGTCCCCC CACCCGTCCCTTCCCTTATCAGCACCCGCGGCCCCGGCAGCGCCGACG CAGGCGCACTGCACCGCGCCGCCGCCATTTTGTGTCTGAGCCTGTGGA GCGATTAAACCGTGCGCGGAGCTGCTTCTTTGGCGGCAGCGGCGGCGG CGGTGGCCGGTGCGGACGCGCGGAGCTCGCCGGAGACGCCGGGTGGCC GGAGCCGTGGAGCGGCGGCGGAGCGGGCGCCGCGGGGGGTGTGGCGCG GAG

4. References

1. https://www.sciencedirect.com/topics/biochemistry-genetics-and-molecular-biology/transcription-factor-ctcf

2. Fu Y, Sinha M, Peterson CL, Weng Z (2008). "The insulator binding protein CTCF positions 20 nucleosomes around its binding sites across the human genome". PLOS Genetics. 4 (7): e1000138. doi:10.1371/journal.pgen.1000138. PMC 2453330. PMID 18654629.

3. https://pubchem.ncbi.nlm.nih.gov/compound/1_2_4-Trimethylbenzene

4. https://www.researchgate.net/publication/319293199_CCCTC-binding_factor_is_essential_to_the_maintenance_and_quiescence_of_hematopoietic_stem_cells_in_mice

Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 352
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 425
  • 1000
    COMPATIBLE WITH RFC[1000]