I am trying to find the full plasmid sequence for pMG101. I have been looking through other papers that have sequenced this plasmid. The GenBank access numbers I got are the following: AY009372–AY009396, ASRI00000000. However, when I go on genbank it gives me a result saying it is not there..... I am stuck and not sure how I am suppose to find this full plasmid sequence. Does anyone know another way to find it?
Looks as if you'll have to do some reconstruction work building the full sequence from the information here and elsewhere in this paper:
Nucleotide sequence accession numbers.The DDBJ/EMBL/GenBank accession numbers for the sequences reported in this paper are AB031076(the SalI-XhoI 3.0-kb fragment of pMG101), D84187(rDNA for strain S55), D86354 (rDNA for USDA 4362), D86355 (rDNA for USDA 4377), AB031077 (plasmid pMG103), and AB031078 (plasmid pMG105).
--Sequence Analysis of the Cryptic Plasmid pMG101 from Rhodopseudomonas palustris and Construction of Stable Cloning Vectors
$\begingroup$ See I do not need the whole sequence, I just need the SilR SilS and SilE, but not as an individual protein, but all together. Also what do you mean my reconstruction work, like I need to sequence it again, or need to start putting the plasmid together based off of already sequenced parts? $\endgroup$ Jul 21, 2016 at 13:34
$\begingroup$ Just from a quick skim of the paper, it seems like the information you need is all there, you just have to piece it together. $\endgroup$– iayorkJul 21, 2016 at 13:35
$\begingroup$ So I found this: ncbi.nlm.nih.gov/nuccore/AF067954.1. This is the part of the plasmid I am looking for, however, this plasmid pMG101 was not isolated from the same bacterial strain that I am using. I am going to be doing primer design, does this matter? $\endgroup$ Jul 22, 2016 at 12:08
$\begingroup$ We have no way of telling. Primers are cheap; if you have good controls downstream, consider making the primers and seeing if they work. $\endgroup$– iayorkJul 22, 2016 at 13:58
$\begingroup$ I just found out it is the same sequence. E. Coli J53's plasmid was derived from this bacterial plasmid. $\endgroup$ Jul 28, 2016 at 13:03
Here it is: http://www.ncbi.nlm.nih.gov/nuccore/4206623?report=graph
This is the same plasmid as in E. Coli J53. This is the newest sequence.