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| Operon |  |
|---|---|
| Name: | yihUTS |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | yihUTS |
| Gene(s): | yihS, yihT, yihU Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | The yihT gene is activated only during growth on lactose Kaznadzey A,2018 YihW is a dual regulator during growth in glucose and lactose, and its functions is sugar dependent Kaznadzey A,2018 yihT is repressed by CRP during growth on both lactose and glucose Kaznadzey A,2018 Based on RNA-seq, primer extension, and computational prediction, three promoters (yihTp1, yihTP2p2, and yihTp3), +93/+94, +35, and +45 relative to the ATG codon, respectively, were identified downstream of the yihT ATG codon, which suggests incorrect identification of either the translational start or their regulatory role in yihT transcription Kaznadzey A,2018 |
| Evidence: | [COMP-AINF] Inferred computationally without human oversight |
| Promoter | |
| Name: | yihUp1 |
| +1: | 4073586 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 15 |
| Sequence: |
aatacgatcaaaaacagacaagcaaagcatgtcataaatgacaaaaagtgacataactgtAttcaggagagggttatggca |
| Note(s): | The sequence for the yihUp1 promoter was not shown. Only the position with respect to its ATG is mentioned in the article Kaznadzey A,2018 |
| Evidence: |
[COMP-AINF-POSITIONAL-IDENTIFICATION] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [EXP-IEP-RNA-SEQ] [EXP-IPI] |
| Reference(s): |
[1] Dornenburg JE., et al., 2010 [2] Kaznadzey A., et al., 2018 |
| Name: | yihUTS |
| Gene(s): | yihS, yihT, yihU Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [COMP-AINF] Inferred computationally without human oversight |
| Promoter | |
| Name: | yihUp2 |
| +1: | 4073596 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 25 |
| Sequence: |
ataaattacaaatacgatcaaaaacagacaagcaaagcatgtcataaatgacaaaaagtgAcataactgtattcaggagag |
| Note(s): | The sequence for the yihUp2 promoter was not shown. Only the position with respect to its ATG is mentioned in the article Kaznadzey A,2018 |
| Evidence: |
[COMP-AINF-POSITIONAL-IDENTIFICATION] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [EXP-IEP-RNA-SEQ] [EXP-IPI] |
| Reference(s): |
[1] Dornenburg JE., et al., 2010 [2] Kaznadzey A., et al., 2018 |
| Name: | yihUTS |
| Gene(s): | yihS, yihT, yihU Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [COMP-AINF] Inferred computationally without human oversight |
| Promoter | |
| Name: | yihUp3 |
| +1: | 4073606 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 35 |
| Sequence: |
ttttttgacgataaattacaaatacgatcaaaaacagacaagcaaagcatgtcataaatgAcaaaaagtgacataactgta |
| Note(s): | The sequence for the yihUp3 promoter was not shown. Only the position with respect to its ATG is mentioned in the article Kaznadzey A,2018 |
| Evidence: |
[COMP-AINF-POSITIONAL-IDENTIFICATION] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [EXP-IEP-RNA-SEQ] [EXP-IPI] |
| Reference(s): |
[1] Dornenburg JE., et al., 2010 [2] Kaznadzey A., et al., 2018 |
| Name: | yihUTS |
| Gene(s): | yihS, yihT, yihU Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [COMP-AINF] Inferred computationally without human oversight |
| Promoter | |
| Name: | yihUp4 |
| +1: | 4073634 |
| Sigma Factor: | Sigma70 Sigmulon |
| Distance from start of the gene: | 63 |
| Sequence: |
caattgtttaaaaagtgacggctgtcaattttttgacgataaattacaaatacgatcaaaAacagacaagcaaagcatgtc |
| Note(s): | The sequence for the yihUp4 promoter was not shown. Only the position with respect to its ATG is mentioned in the article Kaznadzey A,2018 Two transcriptional start sites (TSS) are mentioned at -62 and -63 from ATG of the yhiU gene Kaznadzey A,2018 |
| Evidence: |
[COMP-AINF-POSITIONAL-IDENTIFICATION] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [EXP-IEP-RNA-SEQ] [EXP-IPI] |
| Reference(s): |
[1] Dornenburg JE., et al., 2010 [2] Kaznadzey A., et al., 2018 |
| Name: | yihUTS | ||||||||||
| Gene(s): | yihS, yihT, yihU Genome Browser M3D Gene expression COLOMBOS | ||||||||||
| Note(s): | CsqR represses the expression of the yihUTS operon during the exponential growth phase Shimada T,2019 In the presence of the effectors sulfoquinovose (SQ) and sulfoquinovosyl glycerol (SQG), CsqR is inactivated, which derepresses the expression of the yihUTS operon Shimada T,2019 | ||||||||||
| Evidence: | [COMP-AINF] Inferred computationally without human oversight | ||||||||||
| Promoter | |||||||||||
| Name: | yihUp5 | ||||||||||
| +1: | 4073663 | ||||||||||
| Sigma Factor: | Sigma70 Sigmulon | ||||||||||
| Distance from start of the gene: | 92 | ||||||||||
| Sequence: |
attttgggatgcgttcattttaatttcaccaattgtttaaaaagtgacggctgtcaatttTttgacgataaattacaaata |
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| Note(s): | The sequence for the yihUp5 promoter was not shown. Only the position with respect to its ATG is mentioned in the article Kaznadzey A,2018 Two transcriptional start sites (TSS) are mentioned at -82 and -92 from ATG of the yhiU gene Kaznadzey A,2018 | ||||||||||
| Evidence: |
[COMP-AINF-POSITIONAL-IDENTIFICATION] [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [EXP-IEP-RNA-SEQ] [EXP-IPI] |
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| Reference(s): |
[1] Dornenburg JE., et al., 2010 [2] Kaznadzey A., et al., 2018 |
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| 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 | CsqR | repressor | yihUp5 | 4073662 | 4073687 | -11.0 | caccaattgtTTAAAAAGTGACGGCTGTCAATTTTTtgacgataaa | nd | [EXP-GSELEX], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-GSELEX], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | S | [3] |
| Reference(s) |
|
|---|---|
[COMP-AINF-POSITIONAL-IDENTIFICATION] Automated inference of promoter position