Difference between revisions of "Part:BBa K2983011"

Revision as of 14:41, 19 October 2019

Loop F-Beta

This part is a Loop Type IIS Golden gate adapter that contains a BsaI and a SapI restriction sites.

Usage and Biology

Figure 1. BsaI and SapI restriction sites (adapted from [1])

The Loop Type IIS cloning sites (triangles in figure 1) are a combination of BsaI and SapI restriction sites each with different cutting sites that generate well defined overhangs (circles in Figure 1 and 2).

A total of 50 combinations are theoretically possible and this part is one of them: the loop Alpha-A (Figure 2).

Figure2: Loop F-Beta structure

Blue triangle: SapI fixation site (GAAGAGC)

Red triangle : BsaI fixation site (GGTCTC)

Blue circle : overhang formed by SapI after cutting (GCA)

Yellow circle: overhang formed by BasI after cutting (CGCT)

This part was used to define the Loop assembly system dedicated to the oleaginous yeast Yarrowia lipolytica (for details visit https://2019.igem.org/Team:Evry_Paris-Saclay/Design)

References

[1] Pollak B, Cerda A, Delmans M, Álamos S, Moyano T, West A, Gutiérrez RA, Patron NJ, Federici F, Haseloff J. Loop assembly: a simple and open system for recursive fabrication of DNA circuits. New Phytol (2019) 222, 628-640.

Sequence and Features

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
INCOMPATIBLE WITH RFC[12]
Illegal NheI site found at 9
21
COMPATIBLE WITH RFC[21]
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
INCOMPATIBLE WITH RFC[1000]
Illegal BsaI site found at 1
Illegal SapI.rc site found at 17

@@ Line 6: / Line 6: @@
 ===Usage and Biology===
+[[File:T--Evry Paris-Saclay--Loop-Sites.png|300px|thumb| Figure 1. BsaI and SapI restriction sites (adapted from [1])]]
+The Loop Type IIS cloning sites (triangles in figure 1) are a combination of BsaI and SapI restriction sites each with different cutting sites that generate well defined overhangs (circles in Figure 1 and 2).
-The Loop Type IIS cloning sites (triangles in figure 1) are a combination of BsaI and SapI restriction sites each with different cutting sites that generate well defined overhangs (circles in Figure 1).The sequence of the Loop F-Beta is as fellow : GGTCTCACGCTAGCATGAAGAGC
-[[File:T--Evry Paris-Saclay--Loop F-Beta.png|300px|thumb|left| Figure1: Loop F-Beta structure]]
+A total of 50 combinations are theoretically possible and this part is one of them: the loop Alpha-A (Figure 2).
+[[File:T--Evry Paris-Saclay--Loop F-Beta.png|300px|thumb|left| Figure2: Loop F-Beta structure]]
@@ Line 21: / Line 37: @@
+This part was used to define the Loop assembly system dedicated to the oleaginous yeast ''Yarrowia lipolytica'' (for details visit https://2019.igem.org/Team:Evry_Paris-Saclay/Design)
+===References===
+[1] Pollak B, Cerda A, Delmans M, Álamos S, Moyano T, West A, Gutiérrez RA, Patron NJ, Federici F, Haseloff J. Loop assembly: a simple and open system for recursive fabrication of DNA circuits. New Phytol (2019) 222, 628-640.