Difference between revisions of "Part:BBa K2983014"

Revision as of 14:38, 19 October 2019

Loop Gamma-A

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 Gamma-A structure

Blue triangle: SapI fixation site (GCTCTTC)

Red triangle: BsaI fixation site (GAGACC)

Blue circle: overhang formed by SapI after cutting ()

Red circle: overhang formed by BsaI after cutting ()

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
COMPATIBLE WITH RFC[12]
21
COMPATIBLE WITH RFC[21]
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
INCOMPATIBLE WITH RFC[1000]
Illegal BsaI.rc site found at 18
Illegal SapI site found at 1

@@ 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 Gamma-A is as fellow : GCTCTTCATACAGGAGTGAGACC
-[[File:T--Evry Paris-Saclay--Loop Gamma-A.png|300px|thumb|left| Figure1: Loop Gamma-A 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 Gamma-A.png|300px|thumb|left|Figure2: Loop Gamma-A structure]]
 Blue triangle: SapI fixation site (GCTCTTC)
-Red triangle : BsaI fixation site (GAGACC)
+Red triangle: BsaI fixation site (GAGACC)
+Blue circle: overhang formed by SapI after cutting ()
+Red circle: overhang formed by BsaI after cutting ()
+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===
-Blue circle : overhang formed by SapI after cutting (TAC)
+[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.
-Red circle: overhang formed by BsaI  after cutting (GGAG)