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|
| Operon |  |
|---|---|
| Name: | pdxH-tyrS-pdxY |
| This page displays every known transcription unit of this operon and their known regulation. | |
| Name: | tyrS-pdxY |
| Gene(s): | pdxY, tyrS Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | A potential RNA G-quadruplex structure, formed by guanine-rich sequences located in the coding sequence region of the gene, was identified for tyrS. This structure could regulate the expression of the gene, as observed for hemL gene expression Shao X, Zhang W, Umar MI, Wong HY, Seng Z, Xie Y, Zhang Y, Yang L, Kwok CK, Deng X,2020. |
| Evidence: | [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined |
| Reference(s): | [1] Yang Y., et al., 1998 |
| Promoter | |
| Name: | tyrSp1 |
| +1: | 1717269 |
| Distance from start of the gene: | 47 |
| Sequence: |
taatcgctggtactcctgattctggcactttattctatgtctctttcgcatctggcgaaaAgtcgtgtaccggcaaaggtg |
| Evidence: | [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] |
| Reference(s): |
[2] Lam HM., et al., 1992 [1] Yang Y., et al., 1998 |
| Name: | tyrS-pdxY |
| Gene(s): | pdxY, tyrS Genome Browser M3D Gene expression COLOMBOS |
| Note(s): | A potential RNA G-quadruplex structure, formed by guanine-rich sequences located in the coding sequence region of the gene, was identified for tyrS. This structure could regulate the expression of the gene, as observed for hemL gene expression Shao X, Zhang W, Umar MI, Wong HY, Seng Z, Xie Y, Zhang Y, Yang L, Kwok CK, Deng X,2020. |
| Evidence: | [IC] Inferred by curator |
| Promoter | |
| Name: | tyrSp2 |
| +1: | 1717283 |
| Distance from start of the gene: | 61 |
| Sequence: |
caaaaatcttgctttaatcgctggtactcctgattctggcactttattctatgtctctttCgcatctggcgaaaagtcgtg |
| Evidence: | [EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP] |
| Reference(s): | [3] Mendoza-Vargas A., et al., 2009 |
| Name: | pdxH-tyrS-pdxY |
| Gene(s): | pdxY, tyrS, pdxH Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined [EXP-IMP-POLAR-MUTATION] Polar mutation |
| Reference(s): | [1] Yang Y., et al., 1998 |
| Promoter | |
| Name: | pdxHp |
| +1: | 1718034 |
| Distance from start of the gene: | 27 |
| Sequence: |
actgtcagttacaaaatccacagcgttgagatttttccaggggcggcgcacaatagcgtcAcccactgacaatccgtaaag |
| Evidence: |
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [EXP-IEP] [RS-EPT-CBR] |
| Reference(s): |
[2] Lam HM., et al., 1992 [4] Salgado H, et al., 2012 [1] Yang Y., et al., 1998 [5] Zaslaver A., et al., 2006 |
| Name: | pdxY |
| Gene(s): | pdxY Genome Browser M3D Gene expression COLOMBOS |
| Evidence: | [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified |
| Reference(s): | [5] Zaslaver A., et al., 2006 |
| Promoter | |
| Name: | pdxYp |
| +1: | Unknown |
| Evidence: | [EXP-IEP] |
| Reference(s): | [5] Zaslaver A., et al., 2006 |
| RNA cis-regulatory element | |
|---|
| Regulation, transcriptional elongation | |
| Attenuator type: | Transcriptional |
| Strand: | reverse |
| Structure type | Energy | LeftPos | RightPos | Sequence (RNA-strand) | |
|---|---|---|---|---|---|
| terminator | -23.5 | 1715899 | 1715933 | ttaagtggaaAGGGGGAGTGAGAAATCACTCCCCCTGGTTTTTAtacagggaac | |
| terminator | -7.4 | 1717247 | 1717264 | cgaaaagtcgTGTACCGGCAAAGGTGCagtcgttata | |
| terminator | -12.9 | 1718031 | 1718054 | atttttccagGGGCGGCGCACAATAGCGTCACCcactgacaat | |
| anti-terminator | -8.16 | 1715923 | 1715972 | gtaaaaagaaTTACTGTCTGATTTGCTGGAAATAATGCATTAAGTGGAAAGGGGGAGTGagaaatcact | |
| anti-anti-terminator | -6.6 | 1715953 | 1715987 | ccttactgcgTCGCGGTAAAAAGAATTACTGTCTGATTTGCTGGaaataatgca |
| 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) |
|
|---|---|
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping