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| Operon |  |
|---|---|
| Name: | infA-serW |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | serW |
| Gene(s): | serW Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | A substantial amount of serW transcription originates upstream of serWp1; this suggests that infA and serW may be partially cotranscribed. Such transcripts are likely degraded back to the terminator of infA following excision and processing of the tRNA Cummings HS,1994. Both the serWp1 and serWp2 promoters make comparable contributions to the expression of serW under the conditions of rapid exponential cell growth Cummings HS,1994. These two promoters resemble the structures of many operons for the synthesis of rRNA and tRNAs, where one of the two operons is regulated by growth rate (metabolic control) and one is subjected to stringent control Cummings HS,1994. |
| Evidence: | [BTEI] Boundaries of transcription experimentally identified [LTED] Length of transcript experimentally determined |
| Reference(s): | [1] Cummings HS., et al., 1994 |
| Promoter | |
| Name: | serWp2 |
| +1: | 926006 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 35 |
| Sequence: |
aataattatcattaaaattcttcttgaccgttttactccaactccctatagtagcgccccGttgccacccatgaggtttgg -35 -10 +1 |
| Evidence: |
[HIPP] [ICWHO] [IHBCE] [TIM] |
| Reference(s): |
[1] Cummings HS., et al., 1994 [2] Huerta AM., et al., 2003 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | ataaaatgcgAAAAAAAAGCTCGCACTTTCGTACGAGCTcttctttaaa |
| Reference(s): |
[1] Cummings HS., et al., 1994 [3] Peters JM., et al., 2009 [4] Zuker M. 2003 |
| Evidence: | [IHBCE] Inferred by a human based on computational evidence |
| Reference(s): | [1] Cummings HS., et al., 1994 |
| Name: | serW |
| Gene(s): | serW Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | A substantial amount of serW transcription originates upstream of serWpI; this suggests that infA and serW may be partially cotranscribed. Such transcripts are likely degraded back to the terminator of infA following excision and processing of the tRNA Cummings HS,1994. Both the serWp1 and serWp2 promoters make comparable contributions to the expression of serW under the conditions of rapid exponential cell growth Cummings HS,1994. These two promoters resemble the structures of many operons for the synthesis of rRNA and tRNAs, where one of the two operons is regulated by growth rate (metabolic control) and one is subjected to stringent control Cummings HS,1994. |
| Evidence: | [LTED] Length of transcript experimentally determined |
| Reference(s): | [1] Cummings HS., et al., 1994 |
| Promoter | |
| Name: | serWp1 |
| +1: | 926043 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 72 |
| Sequence: |
agatatactgcacaacttgtttacagtatgagcaaacaataattatcattaaaattcttcTtgaccgttttactccaactc -35 -10 +1 |
| Evidence: |
[IHBCE] [TIM] |
| Reference(s): | [1] Cummings HS., et al., 1994 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | ataaaatgcgAAAAAAAAGCTCGCACTTTCGTACGAGCTcttctttaaa |
| Reference(s): |
[1] Cummings HS., et al., 1994 [3] Peters JM., et al., 2009 [4] Zuker M. 2003 |
| Name: | infA |
| Gene(s): | infA Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [BTEI] Boundaries of transcription experimentally identified |
| Reference(s): | [5] Cummings HS., et al., 1991 |
| Promoter | |
| Name: | infAp2 |
| +1: | 926479 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 36 |
| Sequence: |
tttgttgcgatttagcgcgcaaatctttacttatttacagaacttcggcattatcttgccGgttcaaattacggtagtgat -35 -10 +1 |
| Note(s): | The activity of the infAp2 promoter increases as the growth rate of the cell increases Cummings HS,1991 |
| Evidence: |
[AIPP] [ICWHO] [TIM] |
| Reference(s): |
[5] Cummings HS., et al., 1991 [2] Huerta AM., et al., 2003 [6] Ko JH., et al., 2006 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | tcacaaaataAAAAGGCCGGTTAAACCGACCTTTTactcgttctt |
| Reference(s): | [5] Cummings HS., et al., 1991 |
| Name: | infA |
| Gene(s): | infA Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [BTEI] Boundaries of transcription experimentally identified |
| Reference(s): | [5] Cummings HS., et al., 1991 |
| Promoter | |
| Name: | infAp1 |
| +1: | 926685 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 242 |
| Sequence: |
ttttcaccacaagaatgaatgttttcggcacatttctccccagagtgttataattgcggtCgcagagttggttacgctcat -35 -10 +1 |
| Note(s): | infAp1 promoter activity is induced by cold shock Ko JH,2006. |
| Evidence: |
[AIPP] [ICWHO] [TIM] |
| Reference(s): |
[5] Cummings HS., et al., 1991 [2] Huerta AM., et al., 2003 [6] Ko JH., et al., 2006 |
| Terminator(s) | |
| Type: | rho-independent |
| Sequence: | tcacaaaataAAAAGGCCGGTTAAACCGACCTTTTactcgttctt |
| Reference(s): | [5] Cummings HS., et al., 1991 |
| Name: | infA-serW |
| Gene(s): | serW, infA Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [LTED] Length of transcript experimentally determined |
| Reference(s): | [1] Cummings HS., et al., 1994 |
| RNA cis-regulatory element | |
|---|
| Regulation, transcriptional elongation | |
| Attenuator type: | Transcriptional |
| Strand: | reverse |
| Structure type | Energy | LeftPos | RightPos | Sequence (RNA-strand) | |
|---|---|---|---|---|---|
| terminator | -13.6 | 926154 | 926186 | aagaacgagtAAAAGGTCGGTTTAACCGGCCTTTTTATTTTGtgatatgtat | |
| terminator | -8.3 | 926458 | 926488 | acttcggcatTATCTTGCCGGTTCAAATTACGGTAGTGATaccccagagg | |
| anti-terminator | -8.6 | 926176 | 926217 | tgattgttttACCGCCTGATGGGCGAAGAGAAAGAACGAGTAAAAGGTCGGtttaaccggc | |
| anti-anti-terminator | -5.3 | 926203 | 926215 | attgttttacCGCCTGATGGGCgaagagaaag |
| Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos" |
| Reference(s) |
|
|---|---|
[HIPP] Human inference of promoter position