Difference between revisions of "Lena's Notes"
From LMU BioDB 2013
| (One intermediate revision by one user not shown) | |||
| Line 15: | Line 15: | ||
[[Image:Commandline.PNG]] | [[Image:Commandline.PNG]] | ||
| + | |||
| + | vibrio cholerae id: VC_#### | ||
| + | VC_[0-9][0-9][0-9][0-9] | ||
| + | : | ||
| + | java -jar xmlpipedb-match-1.1.1.jar "VC_[0-9][0-9][0-9][0-9]" <uniprot-46.VC_cholerae_ATCC_39315.xml | ||
| + | : | ||
| + | select count (*) from genenametype where type = 'ordered locus' and value ~ 'VC_(A|)[0-9][0-9][0-9][0-9]'; | ||
Latest revision as of 17:15, 24 October 2013
consenus sequence: codons that like code for somethin particular.
brackets code for "or"
consensus sequnce for -10 site: [ct]at[at]at
-10 site could be... cataat tattat cattat tatat
hairpin sequence is aaaaggt you should see gcctttt, because t=u (mrna) and u binds with g
vibrio cholerae id: VC_#### VC_[0-9][0-9][0-9][0-9]
java -jar xmlpipedb-match-1.1.1.jar "VC_[0-9][0-9][0-9][0-9]" <uniprot-46.VC_cholerae_ATCC_39315.xml
select count (*) from genenametype where type = 'ordered locus' and value ~ 'VC_(A|)[0-9][0-9][0-9][0-9]';
