Difference between revisions of "Part:BBa K1104301:Design"
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===Design Notes=== | ===Design Notes=== | ||
− | + | ==''Exons and Introns''== | |
− | CDS from exons: | + | <p>CDS from exons:</p> |
− | exon1: atgaaaatctattttattgtcggccttctcttcatggctatggttgctatcatggctgcacctgttg | + | <p>exon1: atgaaaatctattttattgtcggccttctcttcatggctatggttgctatcatggctgcacctgttg</p> |
− | exon2: aggatgaattcgagccacttgagcattttgagaatgaagaacgtgccgacagacatagaagagtaacttgtgaccttctctcattcaaaggacaagttaatgacagtgcttgcgctgctaactgtctcagtttgggtaaagctggaggtcattgcgagaaaggagtttgtatttgtcgaaa | + | <p>exon2: aggatgaattcgagccacttgagcattttgagaatgaagaacgtgccgacagacatagaagagtaacttgtgaccttctctcattcaaaggacaagttaatgacagtgcttgcgctgctaactgtctcagtttgggtaaagctggaggtcattgcgagaaaggagtttgtatttgtcgaaa</p> |
− | exon3: aaccagtttcaaagatctctgggacaaacgtttcggttaa | + | <p>exon3: aaccagtttcaaagatctctgggacaaacgtttcggttaa</p> |
− | + | ||
− | mRNA from exons | + | <p>mRNA from exons</p> |
− | exon1 (001-137): gtcagacacttctcagtcttttttcgaatagtttgaatatctattgaagtttaacacgtatttagccaatatgaaaatctattttattgtcggccttctcttcatggctatggttgctatcatggctgcacctgttg | + | <p>exon1 (001-137):</p> <p>gtcagacacttctcagtcttttttcgaatagtttgaatatctattgaagtttaacacgtatttagccaatatgaaaatctattttattgtcggccttctcttcatggctatggttgctatcatggctgcacctgttg</p> |
− | exon2 (138-318): aggatgaattcgagccacttgagcattttgagaatgaagaacgtgccgacagacatagaagagtaacttgtgaccttctctcattcaaaggacaagttaatgacagtgcttgcgctgctaactgtctcagtttgggtaaagctggaggtcattgcgagaaaggagtttgtatttgtcgaaa | + | <p>exon2 (138-318):</p> <p>aggatgaattcgagccacttgagcattttgagaatgaagaacgtgccgacagacatagaagagtaacttgtgaccttctctcattcaaaggacaagttaatgacagtgcttgcgctgctaactgtctcagtttgggtaaagctggaggtcattgcgagaaaggagtttgtatttgtcgaaa</p> |
− | exon3 (319-680): | + | <p>exon3 (319-680):</p> |
− | aaccagtttcaaagatctctgggacaaacgtttcggttaagtgccattatgaagattcaacgatgaaattttttaacaaaaaatatgaaaacgcgaaatgattaagaaatgaaaaatgaaaaactgtattatcattgaaaattctatgaactttaatttacttatttaataaataatataagtaaattatcttttggt | + | <p>aaccagtttcaaagatctctgggacaaacgtttcggttaagtgccattatgaagattcaacgatgaaattttttaacaaaaaatatgaaaacgcgaaatgattaagaaatgaaaaatgaaaaactgtattatcattgaaaattctatgaactttaatttacttatttaataaataatataagtaaattatcttttggt |
− | ttaatttctttaaagtattatcttttgaataaataaatttttttatatagataaattagataataatagaaaataaattttttttctaaatatactaattattatattcattattttaataattaaattgttaaatgcagtaattaacaatagaaatttaaaaa | + | ttaatttctttaaagtattatcttttgaataaataaatttttttatatagataaattagataataatagaaaataaattttttttctaaatatactaattattatattcattattttaataattaaattgttaaatgcagtaattaacaatagaaatttaaaaa</p> |
− | + | ||
− | material peptide based on mRNA sequence (200 to 355) | + | <p>material peptide based on mRNA sequence (200 to 355)</p> |
− | exon2: | + | <p>exon2:</p> |
− | 8887754 | + | <p>8887754</p> |
− | gtaacttgtgaccttctctcattcaaaggacaagttaatgacagtgcttgcgctgctaactgtctcagtttgggtaaagctggaggtcattgcgagaaaggagtttgtatttgtcgaaa | + | <p>gtaacttgtgaccttctctcattcaaaggacaagttaatgacagtgcttgcgctgctaactgtctcagtttgggtaaagctggaggtcattgcgagaaaggagtttgtatttgtcgaaa</p> |
− | 8887872 | + | <p>8887872</p> |
− | + | <p>exon3:</p> | |
− | exon3: aaccagtttcaaagatctctgggacaaacgtttcggt | + | <p>8888151</p> |
− | 8888187 | + | <p>aaccagtttcaaagatctctgggacaaacgtttcggt</p> |
− | + | <p>8888187</p> | |
+ | |||
[[File:NYMU_Group 5 Defensin 1.png|1000px]] | [[File:NYMU_Group 5 Defensin 1.png|1000px]] | ||
− | + | ||
− | See more:[http://www.ncbi.nlm.nih.gov/gene/406143 http://www.ncbi.nlm.nih.gov/gene/406143] | + | *See more:[http://www.ncbi.nlm.nih.gov/gene/406143 http://www.ncbi.nlm.nih.gov/gene/406143] |
− | + | ||
− | + | ==''Defensin1 primers(example)''== | |
− | === | + | ATGGTAACTTGTGACCTTCTCTCATTCA |
− | + | ||
− | + | ||
− | + | ||
− | ATGGTAACTTGTGACCTTCTCTCATTCA | + | |
TGTGACCTTCTCTCATTCAAAGGACAAGTTAATGACAGTGCTTGCGCTGCTAACTGTCT | TGTGACCTTCTCTCATTCAAAGGACAAGTTAATGACAGTGCTTGCGCTGCTAACTGTCT | ||
GCGCTGCTAACTGTCTCAGTTTGGGTAAAGCTGGAGGTCATTGCGAGAAAGGAGTTTGT | GCGCTGCTAACTGTCTCAGTTTGGGTAAAGCTGGAGGTCATTGCGAGAAAGGAGTTTGT | ||
GCGAGAAAGGAGTTTGTATTTGTCGAAAAACCAGTTTCAAAGATCTCTGGGACAAACGTTTCGGTTAA | GCGAGAAAGGAGTTTGTATTTGTCGAAAAACCAGTTTCAAAGATCTCTGGGACAAACGTTTCGGTTAA | ||
− | 19nt,51C 16nt,52C | + | 19nt,51C 16nt,52C 17nt,50C |
− | + | ||
− | + | ||
− | + | ||
− | + | ||
===Source=== | ===Source=== |
Latest revision as of 07:47, 5 October 2013
Defensin1
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21INCOMPATIBLE WITH RFC[21]Illegal BglII site found at 135
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]
Design Notes
Exons and Introns
CDS from exons:
exon1: atgaaaatctattttattgtcggccttctcttcatggctatggttgctatcatggctgcacctgttg
exon2: aggatgaattcgagccacttgagcattttgagaatgaagaacgtgccgacagacatagaagagtaacttgtgaccttctctcattcaaaggacaagttaatgacagtgcttgcgctgctaactgtctcagtttgggtaaagctggaggtcattgcgagaaaggagtttgtatttgtcgaaa
exon3: aaccagtttcaaagatctctgggacaaacgtttcggttaa
mRNA from exons
exon1 (001-137):
gtcagacacttctcagtcttttttcgaatagtttgaatatctattgaagtttaacacgtatttagccaatatgaaaatctattttattgtcggccttctcttcatggctatggttgctatcatggctgcacctgttg
exon2 (138-318):
aggatgaattcgagccacttgagcattttgagaatgaagaacgtgccgacagacatagaagagtaacttgtgaccttctctcattcaaaggacaagttaatgacagtgcttgcgctgctaactgtctcagtttgggtaaagctggaggtcattgcgagaaaggagtttgtatttgtcgaaa
exon3 (319-680):
aaccagtttcaaagatctctgggacaaacgtttcggttaagtgccattatgaagattcaacgatgaaattttttaacaaaaaatatgaaaacgcgaaatgattaagaaatgaaaaatgaaaaactgtattatcattgaaaattctatgaactttaatttacttatttaataaataatataagtaaattatcttttggt ttaatttctttaaagtattatcttttgaataaataaatttttttatatagataaattagataataatagaaaataaattttttttctaaatatactaattattatattcattattttaataattaaattgttaaatgcagtaattaacaatagaaatttaaaaa
material peptide based on mRNA sequence (200 to 355)
exon2:
8887754
gtaacttgtgaccttctctcattcaaaggacaagttaatgacagtgcttgcgctgctaactgtctcagtttgggtaaagctggaggtcattgcgagaaaggagtttgtatttgtcgaaa
8887872
exon3:
8888151
aaccagtttcaaagatctctgggacaaacgtttcggt
8888187
- See more:[http://www.ncbi.nlm.nih.gov/gene/406143 http://www.ncbi.nlm.nih.gov/gene/406143]
Defensin1 primers(example)
ATGGTAACTTGTGACCTTCTCTCATTCA TGTGACCTTCTCTCATTCAAAGGACAAGTTAATGACAGTGCTTGCGCTGCTAACTGTCT GCGCTGCTAACTGTCTCAGTTTGGGTAAAGCTGGAGGTCATTGCGAGAAAGGAGTTTGT GCGAGAAAGGAGTTTGTATTTGTCGAAAAACCAGTTTCAAAGATCTCTGGGACAAACGTTTCGGTTAA 19nt,51C 16nt,52C 17nt,50C
Source
Apis melliferra