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Name: | mnmG-rsmG |
Gene(s): | rsmG, mnmG Genome Browser M3D Gene expression COLOMBOS |
Evidence: | [COMP-AINF] Inferred computationally without human oversight [EXP-IMP-POLAR-MUTATION] Polar mutation |
Reference(s): | [1] Benitez-Paez A., et al., 2012 |
Promoter | |
Name: | mnmGp2 |
+1: | 3925674 |
Sigma Factor: | Sigma38 Sigmulon |
Distance from start of the gene: | 41 |
Sequence: |
atacccaggatcccaggtctttctcaagccgacaaagttgagtagaatccacggcccgggCttcaatccattttcataccg |
Evidence: |
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [EXP-IEP] |
Reference(s): |
[2] Kolling R., et al., 1988 [3] Lelong C., et al., 2007 |
Evidence: | [EXP-IEP] Inferred from expression pattern |
Reference(s): | [4] Ogawa T., et al., 1991 |
Name: | mnmG-rsmG |
Gene(s): | rsmG, mnmG Genome Browser M3D Gene expression COLOMBOS |
Evidence: | [COMP-AINF] Inferred computationally without human oversight [EXP-IMP-POLAR-MUTATION] Polar mutation |
Reference(s): | [1] Benitez-Paez A., et al., 2012 |
Promoter | |
Name: | mnmGp |
+1: | 3925674 |
Sigma Factor: | Sigma70 Sigmulon |
Distance from start of the gene: | 41 |
Sequence: |
atacccaggatcccaggtctttctcaagccgacaaagttgagtagaatccacggcccgggCttcaatccattttcataccg -35 -10 +1 |
Evidence: | [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] |
Reference(s): | [2] Kolling R., et al., 1988 |
Name: | mioC | ||||||||||
Gene(s): | mioC Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | The mioC promoter is stringently regulated Rokeach LA, Zyskind JW,1986 The sequence close to its transcription start point is GC-rich, and there is a poor fit to the consensus sequence in the -35 region of the gid promoter; these two conserved features are shared by promoters under stringent control Lamond AI, Travers AA,1985 | ||||||||||
Evidence: | [COMP-AINF] Inferred computationally without human oversight | ||||||||||
Promoter | |||||||||||
Name: | mioCp | ||||||||||
+1: | 3926475 | ||||||||||
Distance from start of the gene: | 20 | ||||||||||
Sequence: |
ttaatcccatacttttccacaggtagatcccaacgcgttcacagcgtacaatacgccactCttaataaaggtggcggttta |
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Evidence: | [EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP] | ||||||||||
Reference(s): | [5] Mendoza-Vargas A., et al., 2009 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | MraZ | repressor | mioCp | 3926504 | 3926508 | -31.0 | cacaggtagaTCCCAacgcgttcac | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [6] |
proximal | MraZ | repressor | mioCp | 3926517 | 3926521 | -44.0 | tcccatacttTTCCAcaggtagatc | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [6] |
proximal | MraZ | repressor | mioCp | 3926527 | 3926531 | -54.0 | gcttttttaaTCCCAtacttttcca | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [6] |
Evidence: | [EXP-IEP] Inferred from expression pattern |
Reference(s): | [4] Ogawa T., et al., 1991 |
Name: | asnC | ||||||||||
Synonym(s): | OP00153 | ||||||||||
Gene(s): | asnC Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | About 20 % of the transcription initiated at the asnCp promoter reaches the end of the asnC gene. Under nitrogen-limiting growth conditions, the transcription of the asnC gene is repressed by the Nac protein Poggio S,2002. In contrast to the effect of asparagine on the regulation of asnA by AsnC, this amino acid does not affect the autoregulation of AsnCKolling R,1985. |
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Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined |
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Reference(s): | [7] Gielow A., et al., 1988 | ||||||||||
Promoter | |||||||||||
Name: | asnCp | ||||||||||
+1: | 3927031 | ||||||||||
Sigma Factor: | Sigma70 Sigmulon | ||||||||||
Distance from start of the gene: | 28 | ||||||||||
Sequence: |
tcattcaataaaaagcctaactcacttttgattcattaaaaaagaaggctaaaatagaatGaatcatcaatccgcataaga -35 -10 +1 |
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Evidence: |
[COMP-AINF] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] |
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Reference(s): |
[8] Huerta AM., et al., 2003 [9] Kolling R., et al., 1985 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | AsnC | repressor | asnCp | 3927013 | 3927026 | 12.5 | agaatgaatcATCAATCCGCATAAgaaaatccta | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
proximal | AsnC | repressor | asnCp | 3927047 | 3927060 | -22.5 | tcacttttgaTTCATTAAAAAAGAaggctaaaat | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
proximal | AsnC | repressor | asnCp | 3927079 | 3927092 | -54.5 | acatgcaataATCATTCAATAAAAagcctaactc | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
proximal | AsnC | repressor | asnCp | 3927110 | 3927123 | -85.5 | ttgcttatgaTTAAGCAACAAAAAccgacacaca | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | Nac | repressor | asnCp | 3927009 | 3927023 | 16.0 | atgaatcatcAATCCGCATAAGAAAatcctatgga | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IEP-RNA-SEQ], [COMP-AINF-PATTERN-DISCOVERY], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-CHIP-SEQ] | S | [10], [11] |
proximal | Nac | repressor | asnCp | 3927031 | 3927045 | -7.0 | taaaaaagaaGGCTAAAATAGAATGaatcatcaat | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [10] |
proximal | Nac | repressor | asnCp | 3927088 | 3927102 | -64.0 | aaaccgacacACATGCAATAATCATtcaataaaaa | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [10] |
Name: | asnC-mioC-mnmG | ||||||||||
Synonym(s): | asnC-mioC-gidA | ||||||||||
Gene(s): | mnmG, mioC, asnC Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | About 20 % of the transcription initiated at the asnCp promoter reaches the end of the gidA gene. In contrast to the effect of asparagine on the regulation of asnA by AsnC, this amino acid does not affect the autoregulation of AsnCKolling R,1985. It has been observed that the transcriptional regulator IHF binds in the intergenic region of the genes mnmG and mioC, which corresponds to the oriC region Kasho K,2021. |
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Evidence: | [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined | ||||||||||
Reference(s): | [7] Gielow A., et al., 1988 | ||||||||||
Promoter | |||||||||||
Name: | asnCp | ||||||||||
+1: | 3927031 | ||||||||||
Sigma Factor: | Sigma70 Sigmulon | ||||||||||
Distance from start of the gene: | 28 | ||||||||||
Sequence: |
tcattcaataaaaagcctaactcacttttgattcattaaaaaagaaggctaaaatagaatGaatcatcaatccgcataaga -35 -10 +1 |
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Evidence: |
[COMP-AINF] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] |
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Reference(s): |
[8] Huerta AM., et al., 2003 [9] Kolling R., et al., 1985 |
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Terminator(s) | |||||||||||
Type: | rho-independent | ||||||||||
Sequence: | cttgatgcgtTGCCTGGTAAGCGGGTGCTTACCAGGCAtttttaatgc | ||||||||||
Reference(s): | [1] Benitez-Paez A., et al., 2012 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | AsnC | repressor | asnCp | 3927013 | 3927026 | 12.5 | agaatgaatcATCAATCCGCATAAgaaaatccta | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
proximal | AsnC | repressor | asnCp | 3927047 | 3927060 | -22.5 | tcacttttgaTTCATTAAAAAAGAaggctaaaat | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
proximal | AsnC | repressor | asnCp | 3927079 | 3927092 | -54.5 | acatgcaataATCATTCAATAAAAagcctaactc | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
proximal | AsnC | repressor | asnCp | 3927110 | 3927123 | -85.5 | ttgcttatgaTTAAGCAACAAAAAccgacacaca | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | Nac | repressor | asnCp | 3927009 | 3927023 | 16.0 | atgaatcatcAATCCGCATAAGAAAatcctatgga | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IEP-RNA-SEQ], [COMP-AINF-PATTERN-DISCOVERY], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-CHIP-SEQ] | S | [10], [11] |
proximal | Nac | repressor | asnCp | 3927031 | 3927045 | -7.0 | taaaaaagaaGGCTAAAATAGAATGaatcatcaat | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [10] |
proximal | Nac | repressor | asnCp | 3927088 | 3927102 | -64.0 | aaaccgacacACATGCAATAATCATtcaataaaaa | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [10] |
Name: | asnC-mioC | ||||||||||
Gene(s): | mioC, asnC Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | About 50 % of the transcription initiated at the asnCp promoter reaches the end of the mioC gene Gielow A,1988. In contrast to the effect of asparagine on the regulation of asnA by AsnC, this amino acid does not affect the autoregulation of AsnCKolling R,1985. |
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Evidence: | [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined | ||||||||||
Reference(s): | [7] Gielow A., et al., 1988 | ||||||||||
Promoter | |||||||||||
Name: | asnCp | ||||||||||
+1: | 3927031 | ||||||||||
Sigma Factor: | Sigma70 Sigmulon | ||||||||||
Distance from start of the gene: | 28 | ||||||||||
Sequence: |
tcattcaataaaaagcctaactcacttttgattcattaaaaaagaaggctaaaatagaatGaatcatcaatccgcataaga -35 -10 +1 |
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Evidence: |
[COMP-AINF] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] |
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Reference(s): |
[8] Huerta AM., et al., 2003 [9] Kolling R., et al., 1985 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | AsnC | repressor | asnCp | 3927013 | 3927026 | 12.5 | agaatgaatcATCAATCCGCATAAgaaaatccta | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
proximal | AsnC | repressor | asnCp | 3927047 | 3927060 | -22.5 | tcacttttgaTTCATTAAAAAAGAaggctaaaat | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
proximal | AsnC | repressor | asnCp | 3927079 | 3927092 | -54.5 | acatgcaataATCATTCAATAAAAagcctaactc | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
proximal | AsnC | repressor | asnCp | 3927110 | 3927123 | -85.5 | ttgcttatgaTTAAGCAACAAAAAccgacacaca | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [9] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | Nac | repressor | asnCp | 3927009 | 3927023 | 16.0 | atgaatcatcAATCCGCATAAGAAAatcctatgga | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IEP-RNA-SEQ], [COMP-AINF-PATTERN-DISCOVERY], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-CHIP-SEQ] | S | [10], [11] |
proximal | Nac | repressor | asnCp | 3927031 | 3927045 | -7.0 | taaaaaagaaGGCTAAAATAGAATGaatcatcaat | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [10] |
proximal | Nac | repressor | asnCp | 3927088 | 3927102 | -64.0 | aaaccgacacACATGCAATAATCATtcaataaaaa | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [10] |
Name: | rsmG |
Gene(s): | rsmG Genome Browser M3D Gene expression COLOMBOS |
Evidence: | [EXP-IMP-POLAR-MUTATION] Polar mutation |
Reference(s): | [1] Benitez-Paez A., et al., 2012 |
RNA cis-regulatory element | ![]() |
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Regulation, transcriptional elongation | |
Attenuator type: | Transcriptional |
Strand: | reverse |
Structure type | Energy | LeftPos | RightPos | Sequence (RNA-strand) | |
---|---|---|---|---|---|
terminator | -9.8 | 3926533 | 3926571 | cctgcaaaacCCGATCATGCGTACCATCAAGCCCTGATCGGCTTTTTTaatcccatac | |
anti-terminator | -4.2 | 3926565 | 3926588 | accgagacatTGATCGTCCTGCAAAACCCGATCatgcgtacca | |
anti-anti-terminator | -4.8 | 3926581 | 3926613 | ccaaacaattGATGAAATTCAGTCCACCGAGACATTGATCGTcctgcaaaac |
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) |
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