Difference between revisions of "Part:BBa I737020"

Latest revision as of 20:16, 31 October 2007

PoPS->Agarase (Digests agar)

This part is Beta-Agarase cloned out of Pseudoalteromonas atlantica T6C from the ATCC. Pseudoalteromonas atlantica is a gram-negative, motile, chemoorganotroph which lives in sea water. We made a series of primers and cloned agarase using a TOPO cloning kit. We then cloned it into pSB1A2 using XbaI and SpeI after amplifying with primers that add the BioBrick prefix and suffix. Currently the gene has a EcorRI and a PstI site which limits how it can be assembled. It does however have the proper BioBrick prefix and suffix and can be assembled using XbaI and SpeI. Unfortunately this is not directional.

This part has been sequenced and confirmed to be the beta-agarase from Pseudoalteromonas atlantica T6C. The sequence (from genome of T6C) can be found here: http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=109896332&db=Nucleotide&from=3202543&to=3204984&view=gbwithparts&RID=J2F5YTKG01R

Sequencing results can be found on the University of Calgary iGEM 2007 Wiki.

Sequence and Features

Assembly Compatibility:

10
INCOMPATIBLE WITH RFC[10]
Illegal EcoRI site found at 1861
Illegal PstI site found at 284
12
INCOMPATIBLE WITH RFC[12]
Illegal EcoRI site found at 1861
Illegal NheI site found at 106
Illegal NheI site found at 901
Illegal PstI site found at 284
21
INCOMPATIBLE WITH RFC[21]
Illegal EcoRI site found at 1861
Illegal XhoI site found at 1964
23
INCOMPATIBLE WITH RFC[23]
Illegal EcoRI site found at 1861
Illegal PstI site found at 284
25
INCOMPATIBLE WITH RFC[25]
Illegal EcoRI site found at 1861
Illegal PstI site found at 284
Illegal AgeI site found at 368
1000
INCOMPATIBLE WITH RFC[1000]
Illegal BsaI.rc site found at 1319
Illegal SapI.rc site found at 1717
Illegal SapI.rc site found at 1795

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 __NOTOC__
 <partinfo>BBa_I737020 short</partinfo>
-This part is Beta-Agarase cloned out of Pseudoalteromonas atlantica T6C from the ATCC. Pseudoalteromonas atlantica is a gram-negative, motile, chemoorganotroph which lives in sea water. We made a series of primers and cloned agarase using a TOPO cloning kit. Currently the gene has a EcorRI site which limits how it can be assembled.
+This part is Beta-Agarase cloned out of Pseudoalteromonas atlantica T6C from the ATCC. Pseudoalteromonas atlantica is a gram-negative, motile, chemoorganotroph which lives in sea water. We made a series of primers and cloned agarase using a TOPO cloning kit. We then cloned it into pSB1A2 using XbaI and SpeI after amplifying with primers that add the BioBrick prefix and suffix. Currently the gene has a EcorRI and a PstI site which limits how it can be assembled. It does however have the proper BioBrick prefix and suffix and can be assembled using XbaI and SpeI. Unfortunately this is not directional.
+This part has been sequenced and confirmed to be the beta-agarase from Pseudoalteromonas atlantica T6C. The sequence (from genome of T6C) can be found here: http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=109896332&db=Nucleotide&from=3202543&to=3204984&view=gbwithparts&RID=J2F5YTKG01R
+Sequencing results can be found on the University of Calgary iGEM 2007 Wiki.
 <!-- Add more about the biology of this part here