Difference between revisions of "Part:BBa J31001:Design"

Revision as of 19:13, 26 October 2006

DNA invertase Hin tagged with LVA

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
COMPATIBLE WITH RFC[12]
21
COMPATIBLE WITH RFC[21]
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
COMPATIBLE WITH RFC[1000]

Design Notes

This part is cloned in plasmid pSB1A2.

Biobricks

The Biobricks on this part are not wildtype but the cut sites are still viable.

BioBrick Prefix:	GAATTCGCGGCCGC-TCTAGA-
Hin coding:	TGGCTACTATTGGGTATATTCGGGTGTCAACAATTGACCAAAATATCGAT TTACAGCGTAATGCGCTTACCAGTGCAAATTGTGACCGCATTTTTGAGGA CCGTATCAGTGGCAAGATTGCAAACCGCCCCGGCCTGAAACGAGCGTTAA AGTATGTAAATAAAGGCGATACTCTTGTCGTCTGGAAATTAGACAGACTG GGCCGCAGCGTGAAAAACCTGGTGGCGTTAATATCAGAATTACATGAACG TGGAGCTCACTTCCATTCTTTAACCGATAGTATTGATACCAGTAGCGCGA TGGGGCGATTCTTTTTTCATGTAATGTCAGCACTGGCCGAGATGGAGCGAGAATTAATTGTCG AGCGAACCCTTGCCGGACTGGCTGCCGCCAGAGCGCAAGGACGACTGGGAGGGCG CCCTCGGGCGATCAACAGACATGAACAGGAACAGATTAGTCGGCTATTAGAGA AAGGCCATCCTCGGCAGCAACTAGCTATTATTTTTGGTATTGGCGTATCTACCTTA TACAGATATTTTCCGGCAAGCCGTATAAAAAAACGAATGAATAGGCCTGCTGCAAA CGACGAAAACTACGCTTTAGTAGCTTA
BioBrick Suffix:	-ACTAGTTGCGGCCGCCTGCAG

There is no T spacer between the NotI site and the XbaI site.

There is no G spacer between the XbaI and the insert.

There is no T spacer between the insert and the SpeI site.

The T spacer between the SpeI and the NotI sites should be an A.

The last C of the NotI site is not conserved with the initial C from the PstI site.

The BB suffix currently has this sequence for the NotI and PstI sites GCGGCCGcCTGCAG But it should have been: GCGGCCGCTGCAG

We compared our BioBricks with those from Tom Knight's paper, Idempotent Vector Design for Standard Assembly of Biobricks. As seen below

Source

Salmonella typhimurium and the the Hin part without LVA.

References

Knight, Tom. Idempotent Vector Design for Standard Assembly of Biobricks

@@ Line 1: / Line 1: @@
 __NOTOC__
 <partinfo>BBa_J31001 short</partinfo>
@@ Line 15: / Line 14: @@
 {|
 |-
-| style="width:200px"| BioBrick Prefix:
+| style="width:100px"| BioBrick Prefix:
 | <font face="courier"><font color='blue'>GAATTC</font><font color='brown'>GCGGCCGC</font><font color='red'>-</font><font color='purple'>TCTAGA</font><font color='lime'>-</font></font>
 |-
 | Hin coding:
 | <font face="courier"><u>TGGCTACTATTGGGTATATTCGGGTGTCAACAATTGACCAAAATATCGAT<br>
-TTACAGCGTA ATGCGCTTACCAGTGCAAATTGTGACCGCATTTTTGAGG<br>
+TTACAGCGTAATGCGCTTACCAGTGCAAATTGTGACCGCATTTTTGAGGA<br>
-ACCGTATCAGTGGCAAGATTGCAAACCGCCCCGGCCTGAAACGAGCGTTA<br>
+CCGTATCAGTGGCAAGATTGCAAACCGCCCCGGCCTGAAACGAGCGTTAA<br>
-AAGTATGTAAATAAAGGCGATACTCTTGTCGTCTGGAAATTAGACAGACT<br>
+AGTATGTAAATAAAGGCGATACTCTTGTCGTCTGGAAATTAGACAGACTG<br>
-GGGCCGCAGCGTGAAAAACCTGGTGGCGTTAATATCAGAATTACATGAACGT<br>GGAGCTCACTTCCATTCTTTAACCGATAG
+GGCCGCAGCGTGAAAAACCTGGTGGCGTTAATATCAGAATTACATGAACG<br>
-TATTGATACCAGTAGCGCGATGGGGCGATTCTTTTTTCATGTAATGTCAGCACTGGCCGAGATGGAGCGAGAATTAATTGTCGAGCGAACCCTTGCCGGACTGGCTGCCGCCAGAGCGCAAGGACGACTGGGAGGGCG
+TGGAGCTCACTTCCATTCTTTAACCGATAGTATTGATACCAGTAGCGCGA<br>
-CCCTCGGGCGATCAACAGACATGAACAGGAACAGATTAGTCGGCTATTAGAGAAAGGCCATCCTCGGCAGCAACTAGCTATTATTTTTGGTATTGGCGTATCTACCTTATACAGATATTTTCCGGCAAGCCGTATAAAAA
+TGGGGCGATTCTTTTTTCATGTAATGTCAGCACTGGCCGAGATGGAGCGAGAATTAATTGTCG<br>
-AACGAATGAATAGGCCTGCTGCAAACGACGAAAACTACGCTTTAGTAGCTTA</u>
+AGCGAACCCTTGCCGGACTGGCTGCCGCCAGAGCGCAAGGACGACTGGGAGGGCG<br>
+CCCTCGGGCGATCAACAGACATGAACAGGAACAGATTAGTCGGCTATTAGAGA<br>
+AAGGCCATCCTCGGCAGCAACTAGCTATTATTTTTGGTATTGGCGTATCTACCTTA<br>
+TACAGATATTTTCCGGCAAGCCGTATAAAAAAACGAATGAATAGGCCTGCTGCAAA<br>
+CGACGAAAACTACGCTTTAGTAGCTTA</u></font>
+|-
 | BioBrick Suffix:
-| <font color='tan'>-</font color><font color='green'>ACTAGT</font color><font color='gold'>T</font color><font color='magenta'>GCGGCCGC</font color>''C''<font color='cyan'>TGCAG</font></font>
+| <font face="courier"><font color='tan'>-</font><font color='green'>ACTAGT</font><font color='gold'>T</font><font color='magenta'>GCGGCCGC</font>''C''<font color='cyan'>TGCAG</font></font>
 |}