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

By taxonomy - Shewanellaceae
By RNA motif - GEMM_RNA_motif
By effector - Cyclic diguanylate
By pathway - Second messenger response

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

Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes -- version 3.2 --

Regulog GEMM_RNA_motif - Shewanellaceae

Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 3.2 --