Regulog GEMM_RNA_motif - Shewanellaceae
| Regulator type: | RNA regulatory element |
| Name: | GEMM_RNA_motif |
| RFAM: | RF01051 |
| Regulation mode: | |
| Biological process: | Second messenger response |
| Effector: | Cyclic diguanylate |
| Phylum: | Proteobacteria |
Member of regulog collections
- By taxonomy - Shewanellaceae
- By RNA motif - GEMM_RNA_motif
- By effector - Cyclic diguanylate
- By pathway - Second messenger response
| Genome | Genes | Operons |
|---|---|---|
| Shewanella oneidensis MR-1 | 1 | 1 |
| Shewanella putrefaciens CN-32 | ||
| Shewanella sp W3-18-1 | 1 | 1 |
| Shewanella sp ANA-3 | 1 | 1 |
| Shewanella sp MR-4 | 3 | 3 |
| Shewanella sp MR-7 | 3 | 3 |
| Shewanella baltica OS155 | 2 | 2 |
| Shewanella denitrificans OS217 | 1 | 1 |
| Shewanella frigidimarina NCIMB 400 | ||
| Shewanella amazonensis SB2B | ||
| Shewanella loihica PV-4 | 1 | 1 |
| Shewanella pealeana ATCC 700345 | 1 | 1 |
| Shewanella halifaxensis HAW-EB4 | 2 | 2 |
| Shewanella piezotolerans WP3 | 1 | 1 |
| Shewanella sediminis HAW-EB3 | 1 | 1 |
| Shewanella woodyi ATCC 51908 | 2 | 2 |
| Genes | Function | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CRON 1. | |||||||||||||||||
| chiA |
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*
Shewanella sp ANA-3 Site: position = -198 score = 78.73 sequence = TTAGTGTAAAAGGCA... Gene: Shewana3_2984: Chitinase (EC 3.2.1.14) |
*
Shewanella sp MR-4 Site: position = -196 score = 76.17 sequence = TTATTGTGAAAGGCA... Gene: Shewmr4_2805: Chitinase (EC 3.2.1.14) |
*
Shewanella sp MR-7 Site: position = -196 score = 76.17 sequence = TTATTGTGAAAGGCA... Gene: Shewmr7_2888: Chitinase (EC 3.2.1.14) |
*
Shewanella baltica OS155 Site: position = -204 score = 76.14 sequence = TGCGTGTAAAAGGCA... Gene: Sbal_3083: Chitinase (EC 3.2.1.14) |
*
Shewanella denitrificans OS217 Site: position = -194 score = 61.8 sequence = GCTGTGGAAGGCAAA... Gene: Sden_2136: Chitinase (EC 3.2.1.14) |
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*
Shewanella piezotolerans WP3 Site: position = -222 score = 20.14 sequence = ATGAAATGAAAGGCA... Gene: swp_0647: Chitinase (EC 3.2.1.14) |
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*
Shewanella woodyi ATCC 51908 Site: position = -270 score = 60.79 sequence = ATGTACAAAGGCAAA... Gene: Swoo_1100: Chitinase (EC 3.2.1.14) |
Chitinase (EC 3.2.1.14) |
| CRON 2. | |||||||||||||||||
| cbp |
*
Shewanella oneidensis MR-1 Site: position = -221 score = 74.91 sequence = ACCGTATTGGGCAAA... Gene: SO_1072: Chitin and N-acetylglucosamine-binding protein |
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*
Shewanella sp MR-4 Site: position = -222 score = 72.81 sequence = CCACCGTATTTGGCA... Gene: Shewmr4_3027: Chitin and N-acetylglucosamine-binding protein |
*
Shewanella sp MR-7 Site: position = -220 score = 72.78 sequence = ACCGTATTTGGCAAA... Gene: Shewmr7_0947: Chitin and N-acetylglucosamine-binding protein |
*
Shewanella baltica OS155 Site: position = -221 score = 69.68 sequence = ACCGTATTTGGCAAA... Gene: Sbal_0896: Chitin and N-acetylglucosamine-binding protein |
Gene: Sden_1030: Chitin and N-acetylglucosamine-binding protein |
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*
Shewanella woodyi ATCC 51908 Site: position = -225 score = 63.41 sequence = TCCATGTATTTGGCA... Gene: Swoo_3879: Chitin and N-acetylglucosamine-binding protein |
Chitin and N-acetylglucosamine-binding protein |
| CRON 3. | |||||||||||||||||
| Sputw3181_3484 |
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*
Shewanella sp W3-18-1 Site: position = -167 score = 54.92 sequence = ACTGACGAACAGGTA... Gene: Sputw3181_3484: Hypothetical secreted protein |
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*
Shewanella sp MR-4 Site: position = -176 score = 55.18 sequence = ACTGACGAACAGGCA... Gene: Shewmr4_3376: Hypothetical secreted protein |
*
Shewanella sp MR-7 Site: position = -174 score = 55.18 sequence = TGACGAACAGGCACA... Gene: Shewmr7_0577: Hypothetical secreted protein |
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Gene: Sama_3232: Hypothetical secreted protein |
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Hypothetical secreted protein |
| CRON 4. | |||||||||||||||||
| chiA2 |
Gene: SO_4085: Chitinase (EC 3.2.1.14) |
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*
Shewanella pealeana ATCC 700345 Site: position = -150 score = 69.26 sequence = TTGATGAAAAAGGCA... Gene: Spea_3655: Chitinase (EC 3.2.1.14) |
*
Shewanella halifaxensis HAW-EB4 Site: position = -157 score = 70.71 sequence = TTGATGAAAAAGGCA... Gene: Shal_3745: Chitinase (EC 3.2.1.14) |
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Chitinase (EC 3.2.1.14) |
| CRON 5. | |||||||||||||||||
| PF10462 |
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*
Shewanella halifaxensis HAW-EB4 Site: position = -190 score = 76.9 sequence = CAGCGAAAAGGCAAA... Gene: Shal_3479: Peptidase M66, PF10462 |
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Peptidase M66, PF10462 |
| CRON 6. | |||||||||||||||||
| filK |
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*
Shewanella loihica PV-4 Site: position = -156 score = 63.21 sequence = TCTCGAAACGGCAAG... Gene: Shew_1642: Flagellar hook-length control protein FliK |
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Flagellar hook-length control protein FliK |
| CRON 7. | |||||||||||||||||
| Ssed_3199 |
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*
Shewanella sediminis HAW-EB3 Site: position = -193 score = 46.56 sequence = TACGATAAAGGCAAA... Gene: Ssed_3199: Hypothetical secreted protein |
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Hypothetical secreted protein |
Bluish color - the gene is in regulated operon. Different regulated operons are shown in different shades of blue.
Red color - the gene is in non-regulated operon.
Gray color - the orthologous gene is absent.
The star symbol - the TFBS is located in upstream region of this gene.
The number - the numeber of homologs (shown only if it is greater than one).
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Regulated Genes | [ Tab delimited format ] | DOWNLOAD |
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Regulatory Sites | [ FASTA format ] | DOWNLOAD |