Category:rRNA operons
In E. coli K-12, rRNAs are expressed from 7 operons: <protect>
| Operon | Synonyms | Strand | P1 start | P2 start | Genes | T1 | T1 Poly(U) Region | T2 | T2 Poly(U) Region | Evidence for terminators | Notes |
|---|---|---|---|---|---|---|---|---|---|---|---|
|
rrnA |
Plus |
4,033,262 |
4,033,379 |
4,038,670 - 4,038,690 |
4,038,701 - 4,038,712 |
4,038,842 - 4,038,861 |
4,038,862 - 4,038,873 |
Inferred from Sequence Alignment with rrnB terminators. Inferred from sequence model.[1] |
The genes for tRNAAla1B and tRNAIle are located in between the 16S and 23S rRNA [2] | ||
|
rrnB |
Plus |
4,164,390 |
4,164,507 |
4,169,789 - 4,169,820 |
4,169,821 - 4,169,832 |
4,169,956 - 4,169,988 |
4,169,990 - 4,170,001 |
Inferred from Direct Assay. [3] Inferred from sequence model.[1] |
The gene for tRNAGlu2 is located in between the 16S and 23S rRNA [2] | ||
|
rrnC |
Plus |
3,939,539 |
3,939,656 |
3,944,859 - 3,944,874 |
3,945,063 - 3,945,082 |
3945083 - 3945094 |
Inferred by sequence alignment.[4] Inferred from sequence model.[1] |
The genes encoding tRNATrp and tRNAAsp are located at the 3' end of the operon. The gene for tRNAGlu2 is located in between the 16S and 23S rRNA [5] [6] | |||
|
rrnD |
Minus |
3,427,069 |
3,426,962 |
3,421,435 - 3,421,404 |
3,421,403 - 3,421,392 |
3,421,268 - 3,421,236 |
3,421,235 - 3,421,224 |
Inferred from Sequence Alignment with rrnB terminators. Inferred from sequence model.[1] |
The rrnD operon has the gene for tRNAThr at the distal end of the operon [7] [8]. The genes for tRNAAla1B and tRNAIle are located in between the 16S and 23S rRNA [2] | ||
|
rrnE |
Plus |
4205886 |
4205994 |
4,210,753 - 4,210,773 |
4,211,196 - 4,211,216 |
4211217 - 4211228 |
Inferred from sequence model.[1] |
The gene for tRNAGlu2 is located in between the 16S and 23S rRNA [2] | |||
|
rrnG |
rrnF
|
Minus |
2,729,470 |
2,729,354 |
2,724,076 - 2,724,057 |
2724076 - 2724057 |
Inferred from Sequence Alignment with rrnB terminators. Inferred from sequence model[1]. |
The gene for tRNAGlu2 is located in between the 16S and 23S rRNA [2] | |||
|
rrnH |
Plus |
223,485 |
223,593 |
228,892 - 228,907 |
229,017 - 229,036 |
229,037 - 229,048 |
Inferred from sequence alignments with rrnC. Inferred from sequence model[1]. |
The genes for tRNAAla1B and tRNAIle are located in between the 16S and 23S rRNA [2] | |||
| edit table |
</protect>
- rrnA
- rrnB
- rrnC - 83 minutes
- rrnD
- rrnE
- rrnG (aka rrnF)
- rrnH
General Structure
- A strain carrying deletions of all chromosomal rRNAs has been described. [9]
Promoter -- gene encoding 16S rRNA -- either: tRNAGlu or tRNAAla & tRNAIle -- gene encoding 23S rRNA -- gene encoding 5S rRNA -- Some operons have additional tRNA genes (tRNATrp & tRNAAsp) -- terminators
Click to see a diagram of rRNA operons or diagram of rRNA operons
Promoters
Terminators
<protect>
| Operon | T1 Stem Coord. | T2 Stem Coord. | Evidence |
|---|---|---|---|
|
rrnA |
4,038,670-4,038,682 & 4,038,687-4,038,690 |
4,038,842-4038,849 & 4,038,854-4,038,861 |
Inferred from Sequence Alignment with rrnB terminators. Inferred from sequence model.[1] |
|
rrnB |
4,169,789 - 4,169,802 & 4,169,807 - 4,169,820 |
4,169,956 - 4,169,969 & 4,169,974 - 4,169,988 |
Inferred from Direct Assay. [3] Inferred from sequence model.[1] |
|
rrnC |
3,944,859 - 3,944,863 & 3,944,870 - 3,944,874 |
3,945,063 - 3,945,071 & 3,945,075 - 3,945,082 |
Inferred by sequence alignment.[4] Inferred from sequence model.[1] |
|
rrnD |
3,421,435 - 3,421,422 & 3,421,417 - 3,421,404 |
3,421,268 - 3,241,255 & 3,241,250 - 3,421,236 |
Inferred from Sequence Alignment with rrnB terminators. Inferred from sequence model.[1] |
|
rrnE |
4,210,753 - 4,210,760 & 4,210,766 - 4,210,773 |
4,211,196 - 4,211,203 & 4,211,209 - 4,211,216 |
Inferred from sequence model.[1] |
|
rrnG |
2,724,076 - 2,724,069 & 2,724,064 - 2,724,057 |
Inferred from Sequence Alignment with rrnB terminators. Inferred from sequence model.[1] | |
|
rrnH |
228,892 - 228,896 & 228,903 - 228,907 |
229,017 - 229,024 & 229,029 - 229,036 |
Inferred from sequence alignments with rrnC. Inferred from sequence model[1]. |
| edit table |
</protect>
References and genbank entries
- rrnB [3]
- rrnC [4]
- rrnD operon contains downstream tRNAs and multiple 5S rRNAs[8].Genbank
- rrnE Genbank. Liebke and Hatfull [10] sequenced an rrnE terminator and compared it to the sequences in rrnB and rrnD.
- rrnF (aka rrnG) 3'end[11][12] Genbank
<protect></protect>
References
See Help:References for how to manage references in EcoliWiki.
- ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 Lesnik, EA et al. (2001) Prediction of rho-independent transcriptional terminators in Escherichia coli. Nucleic Acids Res. 29 3583-94 PubMed
- ↑ 2.0 2.1 2.2 2.3 2.4 2.5 Harvey, S & Hill, CW (1990) Exchange of spacer regions between rRNA operons in Escherichia coli. Genetics 125 683-90 PubMed
- ↑ 3.0 3.1 3.2 Orosz, A et al. (1991) Analysis of the complex transcription termination region of the Escherichia coli rrnB gene. Eur. J. Biochem. 201 653-9 PubMed
- ↑ 4.0 4.1 4.2 Young, RA (1979) Transcription termination in the Escherichia coli ribosomal RNA operon rrnC. J. Biol. Chem. 254 12725-31 PubMed
- ↑ Morgan, EA et al. (1978) Some rRNA operons in E. coli have tRNA genes at their distal ends. Cell 13 335-44 PubMed
- ↑ Morgan, EA et al. (1977) Identification of spacer tRNA genes in individual ribosomal RNA transcription units of Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 74 2710-4 PubMed
- ↑ Gourse, RL & Nomura, M (1984) Level of rRNA, not tRNA, synthesis controls transcription of rRNA and tRNA operons in Escherichia coli. J. Bacteriol. 160 1022-6 PubMed
- ↑ 8.0 8.1 Duester, GL & Holmes, WM (1980) The distal end of the ribosomal RNA operon rrnD of Escherichia coli contains a tRNA1thr gene, two 5s rRNA genes and a transcription terminator. Nucleic Acids Res. 8 3793-807 PubMed
- ↑ Asai, T et al. (1999) An Escherichia coli strain with all chromosomal rRNA operons inactivated: complete exchange of rRNA genes between bacteria. Proc. Natl. Acad. Sci. U.S.A. 96 1971-6 PubMed
- ↑ Liebke, H & Hatfull, G (1985) The sequence of the distal end of the E. coli ribosomal RNA rrnE operon indicates conserved features are shared by rrn operons. Nucleic Acids Res. 13 5515-25 PubMed
- ↑ Sekiya, T et al. (1980) Sequence of the distal tRNA1Asp gene and the transcription termination signal in the Escherichia coli ribosomal RNA operon rrnF(or G). Nucleic Acids Res. 8 3809-27 PubMed
- ↑ Albrechtsen, B et al. (1991) Transcriptional termination sequence at the end of the Escherichia coli ribosomal RNA G operon: complex terminators and antitermination. Nucleic Acids Res. 19 1845-52 PubMed
Subcategories
This category has the following 7 subcategories, out of 7 total.
