Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 4.0 --

Regulog GEMM_RNA_motif - Shewanellaceae

Properties
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
Statistics of regulated genes
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
Clusters of co-Regulated Orthologous operoNs (CRONs)
Genes Function
 
CRON 1.
chiA
 
Shewanella oneidensis MR-1
 
Shewanella putrefaciens CN-32
 
Shewanella sp W3-18-1
*
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)
 
Shewanella frigidimarina NCIMB 400
 
Shewanella amazonensis SB2B
 
Shewanella loihica PV-4
 
Shewanella pealeana ATCC 700345
 
Shewanella halifaxensis HAW-EB4
*
Shewanella piezotolerans WP3

Site:
position = -222
score = 20.14
sequence = ATGAAATGAAAGGCA...

Gene: swp_0647: Chitinase (EC 3.2.1.14)
 
Shewanella sediminis HAW-EB3
*
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
 
Shewanella putrefaciens CN-32
 
Shewanella sp W3-18-1
 
Shewanella sp ANA-3
*
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
 
Shewanella denitrificans OS217

Gene: Sden_1030: Chitin and N-acetylglucosamine-binding protein
 
Shewanella frigidimarina NCIMB 400
 
Shewanella amazonensis SB2B
 
Shewanella loihica PV-4
 
Shewanella pealeana ATCC 700345
 
Shewanella halifaxensis HAW-EB4
 
Shewanella piezotolerans WP3
 
Shewanella sediminis HAW-EB3
*
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
 
Shewanella oneidensis MR-1
 
Shewanella putrefaciens CN-32
*
Shewanella sp W3-18-1

Site:
position = -167
score = 54.92
sequence = ACTGACGAACAGGTA...

Gene: Sputw3181_3484: Hypothetical secreted protein
 
Shewanella sp ANA-3
*
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
 
Shewanella baltica OS155
 
Shewanella denitrificans OS217
 
Shewanella frigidimarina NCIMB 400
 
Shewanella amazonensis SB2B

Gene: Sama_3232: Hypothetical secreted protein
 
Shewanella loihica PV-4
 
Shewanella pealeana ATCC 700345
 
Shewanella halifaxensis HAW-EB4
 
Shewanella piezotolerans WP3
 
Shewanella sediminis HAW-EB3
 
Shewanella woodyi ATCC 51908
Hypothetical secreted protein
 
CRON 4.
chiA2
 
Shewanella oneidensis MR-1

Gene: SO_4085: Chitinase (EC 3.2.1.14)
 
Shewanella putrefaciens CN-32
 
Shewanella sp W3-18-1
 
Shewanella sp ANA-3
 
Shewanella sp MR-4
 
Shewanella sp MR-7
 
Shewanella baltica OS155
 
Shewanella denitrificans OS217
 
Shewanella frigidimarina NCIMB 400
 
Shewanella amazonensis SB2B
 
Shewanella loihica PV-4
*
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)
 
Shewanella piezotolerans WP3
 
Shewanella sediminis HAW-EB3
 
Shewanella woodyi ATCC 51908
Chitinase (EC 3.2.1.14)
 
CRON 5.
PF10462
 
Shewanella oneidensis MR-1
 
Shewanella putrefaciens CN-32
 
Shewanella sp W3-18-1
 
Shewanella sp ANA-3
 
Shewanella sp MR-4
 
Shewanella sp MR-7
 
Shewanella baltica OS155
 
Shewanella denitrificans OS217
 
Shewanella frigidimarina NCIMB 400
 
Shewanella amazonensis SB2B
 
Shewanella loihica PV-4
 
Shewanella pealeana ATCC 700345
*
Shewanella halifaxensis HAW-EB4

Site:
position = -190
score = 76.9
sequence = CAGCGAAAAGGCAAA...

Gene: Shal_3479: Peptidase M66, PF10462
 
Shewanella piezotolerans WP3
 
Shewanella sediminis HAW-EB3
 
Shewanella woodyi ATCC 51908
Peptidase M66, PF10462
 
CRON 6.
filK
 
Shewanella oneidensis MR-1
 
Shewanella putrefaciens CN-32
 
Shewanella sp W3-18-1
 
Shewanella sp ANA-3
 
Shewanella sp MR-4
 
Shewanella sp MR-7
 
Shewanella baltica OS155
 
Shewanella denitrificans OS217
 
Shewanella frigidimarina NCIMB 400
 
Shewanella amazonensis SB2B
*
Shewanella loihica PV-4

Site:
position = -156
score = 63.21
sequence = TCTCGAAACGGCAAG...

Gene: Shew_1642: Flagellar hook-length control protein FliK
 
Shewanella pealeana ATCC 700345
 
Shewanella halifaxensis HAW-EB4
 
Shewanella piezotolerans WP3
 
Shewanella sediminis HAW-EB3
 
Shewanella woodyi ATCC 51908
Flagellar hook-length control protein FliK
 
CRON 7.
Ssed_3199
 
Shewanella oneidensis MR-1
 
Shewanella putrefaciens CN-32
 
Shewanella sp W3-18-1
 
Shewanella sp ANA-3
 
Shewanella sp MR-4
 
Shewanella sp MR-7
 
Shewanella baltica OS155
 
Shewanella denitrificans OS217
 
Shewanella frigidimarina NCIMB 400
 
Shewanella amazonensis SB2B
 
Shewanella loihica PV-4
 
Shewanella pealeana ATCC 700345
 
Shewanella halifaxensis HAW-EB4
 
Shewanella piezotolerans WP3
*
Shewanella sediminis HAW-EB3

Site:
position = -193
score = 46.56
sequence = TACGATAAAGGCAAA...

Gene: Ssed_3199: Hypothetical secreted protein
 
Shewanella woodyi ATCC 51908
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).
Export
Regulated Genes [ Tab delimited format ] DOWNLOAD
Regulatory Sites [ FASTA format ] DOWNLOAD