The complete Mycoplasma pneumoniae genome was assembled from 28 cosmid
sequences. Each sequence is terminated by an EcoRI restriction site. Two
adjacent cosmid sequences are only overlapping by their terminal EcoRI restriction
The cirular order of these cosmids is:
Each cosmid is annotated with the prefix: pcosMP*** (eg. pcosMPE07) with
the exception of VXpSPT7
Nomenclature of the ORFs
Instead of a numerical nomenclature of the ORFs like for M. genitalium or
H. influenzae, we decided to take a cosmid orientated nomenclature.
All open reading frames are annotated as follows:
The name of an ORF is for example: E07_orf1627
- This means that it is located on the cosmid pcosMPE07 and it has got
the length of 1627 amino acids.
- If two ORFs of one cosmid have the same length, then they are distinguishable
by having an "a" or "b" at the end (eg. E09_orf283a;
- ORF Names ending with "V" (eg. B01_orf299V) have GTG as
- ORF Names ending with "L" (eg. C12_orf948L) have TTG as
- ORF Names ending with "o" (eg. E07_orf540o) are overlapping("o")
ORFs located at the ends of two adjacent cosmids. The start codon of E07_orf540o
is located in pcosMPE07 and the stop codon is in the adjacent cosmid, depending
on the orientation of this ORF.
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