Regulated Operon: rrnD

Genes
Genes Synonyms Direction Genome position Function COG ID Conserved groups
rrnD-16S
+ 946030..947583 ribosomal RNA-16S
 
rrnD-23S
+ 947751..950679 ribosomal RNA-23S
 
rrnD-5S
+ 950791..950906 ribosomal RNA-5S
 
trnD-Asn trnR, trnR + 950916..950990 transfer RNA-Asn
 
trnD-Ser trnR, trnR + 950996..951087 transfer RNA-Ser
 
trnD-Glu trnR, trnR + 951122..951196 transfer RNA-Glu
 
trnD-Val trnR, trnR + 951203..951278 transfer RNA-Val
 
trnD-Met trnR, trnR + 951288..951364 transfer RNA-Met
 
trnD-Asp trnR, trnR + 951376..951452 transfer RNA-Asp
 
trnD-Phe trnR, trnR + 951465..951540 transfer RNA-Phe
 
trnD-Thr trnR, trnR + 951546..951621 transfer RNA-Thr
 
trnD-Tyr trnR, trnR + 951641..951725 transfer RNA-Tyr
 
trnD-Trp trnR, trnR + 951731..951804 transfer RNA-Trp
 
trnD-His trnR, trnR + 951829..951904 transfer RNA-His
 
trnD-Gln trnR, trnR + 951914..951988 transfer RNA-Gln
 
trnD-Gly trnR, trnR + 952035..952109 transfer RNA-Gly
 
trnD-Cys trnR, trnR + 952115..952188 transfer RNA-Cys
 
trnD-Leu1 trnR, trnR + 952193..952281 transfer RNA-Leu
 
trnD-Leu2 trnR, trnR + 952547..952631 transfer RNA-Leu
 

Operon evidence: Northern blotting; S1 nuclease mapping
Reference: Wawrousek EF, et al. (1984), Vold BS, et al. (1988)
Comments: The Northern blotting experiments showed the position of the terminators, but did not determine if all genes belong to the same operon. The readthrough terminator downstream of trnD-Leu1 prevents most transcripts to continue into trnD-Leu2, which is therefore mainly transcribed from its own promoter.

Promoters

Binding
factor		 Regulation Location Absolute position Binding seq.(cis-element) Experimental evidence
SigA Promoter ND 946379..946441 AAAAAGGTGTTGACTCTGATTCTTGACCGTGTTATATTATTAAACGTCGCTGATGCGCTTCTG Jarvis ED, et al. (1990): HM
SigA Promoter ND 946476..946538 AAAAAAACATTTGACAAAAGAAAGTCAAAATGTTATATTAATAAAGTCGCTTCAACAAGAAGT Jarvis ED, et al. (1990): HM
SigA Promoter -39:+12 951403..951453 AACACTTGATTTTCTCAAGAATACATAGTATAATGTTAAATGTCACTGAAA Vold BS, et al. (1988): S1
SigA Promoter -47:+13 953138..953197 TTTTTTGAAATACGTTGACACTTTATGAGATCCATGATATATTTATATTCGTCGGTTAGA Vold BS, et al. (1988): S1

Terminator

Terminator sequence Absolute position Position from stop codon Free energy
[kcal/mol]		 Downstream of
GAAAAACCCGTTTCTTAACAGAAACGGGTTTTTATTTTTTATT
      >>>>>>>>>    <<<<<<<<<
953305..953326
674..695
-14.6
 trnD-Leu2
GAAAAGGAGCCTCGGCTCCTTTTTATACTTACTC
     >>>>>    <<<<<
953350..953363
719..732
-8.4
 trnD-Leu2
ATTAATGATCTACATAAGTAGATCATTTTTTTAATGCTTT
     >>>>>>>>    <<<<<<<<
953011..953030
380..399
-11.7
 trnD-Leu2

Overview



Upper Region
Copyright: Human Genome Center, Inst. Med. Sci., Univ. Tokyo; 1999-2008
Contact: Kenta Nakai