Regulog RafR - Bifidobacteriaceae

Properties
Regulator type:	Transcription factor
Regulator family:	ROK
Regulation mode:	activator
Biological process:	Raffinose utilization
Effector:
Phylum:	Actinobacteria
Visualization:
	Allows to visualize regulog content in the context of metabolic pathways

Built upon 17 sites [see more]

Member of regulog collections

By taxonomy - Bifidobacteriaceae
By TF family - ROK
By pathway - Raffinose utilization

Statistics of regulated genes
Genome	Genes	Operons
Bifidobacterium longum subsp. infantis ATCC 15697	4	2
Bifidobacterium adolescentis ATCC 15703	5	3
Bifidobacterium angulatum DSM 20098	5	3
Bifidobacterium animalis subsp. lactis AD011	4	2
Bifidobacterium bifidum NCIMB 41171
Bifidobacterium breve DSM 20213	4	2
Bifidobacterium dentium Bd1	5	3
Bifidobacterium gallicum DSM 20093
Bifidobacterium longum NCC2705	4	2
Gardnerella vaginalis 409-05

Clusters of co-Regulated Orthologous operoNs (CRONs)
Genes											Function

CRON 1.
rafB	* Bifidobacterium longum subsp. infantis ATCC 15697 Site: position = -152 score = 5.54311 sequence = TTTATTGCGTTAATCACAAAATA Gene: Blon_2458: Raffinose ABC transporter, substrate-binding protein	* Bifidobacterium adolescentis ATCC 15703 Site: position = -161 score = 5.52088 sequence = TACTTTCCAAGAATAACAAAATA Gene: BAD_1574: Raffinose ABC transporter, substrate-binding protein	* Bifidobacterium angulatum DSM 20098 Site: position = -230 score = 4.20765 sequence = TTCTTTCCTTCGATATGAAATTT Gene: BIFANG_00401: Raffinose ABC transporter, substrate-binding protein	* Bifidobacterium animalis subsp. lactis AD011 Site: position = -158 score = 4.14775 sequence = TAGTTTCCATGAGTATATAAATA Gene: BLA_1522: Raffinose ABC transporter, substrate-binding protein	Bifidobacterium bifidum NCIMB 41171	* Bifidobacterium breve DSM 20213 Site: position = -152 score = 5.54311 sequence = TTTATTGCGTTAATCACAAAATA Gene: BIFBRE_00616: Raffinose ABC transporter, substrate-binding protein	* Bifidobacterium dentium Bd1 Site: position = -159 score = 5.2507 sequence = TACTTTCTCAGAATAACAAAATC Gene: BDP_2226: Raffinose ABC transporter, substrate-binding protein	Bifidobacterium gallicum DSM 20093	* Bifidobacterium longum NCC2705 Site: position = -155 score = 5.54311 sequence = TTTATTGCGTTAATCACAAAATA Gene: BL1521: Raffinose ABC transporter, substrate-binding protein	Gardnerella vaginalis 409-05	Raffinose ABC transporter, substrate-binding protein
rafC	Bifidobacterium longum subsp. infantis ATCC 15697 Gene: Blon_2457: Raffinose ABC transporter, permease protein 1	Bifidobacterium adolescentis ATCC 15703 Gene: BAD_1573: Raffinose ABC transporter, permease protein 1	Bifidobacterium angulatum DSM 20098 Gene: BIFANG_00400: Raffinose ABC transporter, permease protein 1	Bifidobacterium animalis subsp. lactis AD011 Gene: BLA_1521: Raffinose ABC transporter, permease protein 1	Bifidobacterium bifidum NCIMB 41171	Bifidobacterium breve DSM 20213 Gene: BIFBRE_00615: Raffinose ABC transporter, permease protein 1	Bifidobacterium dentium Bd1 Gene: BDP_2225: Raffinose ABC transporter, permease protein 1	Bifidobacterium gallicum DSM 20093	Bifidobacterium longum NCC2705 Gene: BL1522: Raffinose ABC transporter, permease protein 1	Gardnerella vaginalis 409-05	Raffinose ABC transporter, permease protein 1
rafD	Bifidobacterium longum subsp. infantis ATCC 15697 Gene: Blon_2456: Raffinose ABC transporter, permease protein 2	Bifidobacterium adolescentis ATCC 15703 Gene: BAD_1572: Raffinose ABC transporter, permease protein 2	Bifidobacterium angulatum DSM 20098 Gene: BIFANG_00399: Raffinose ABC transporter, permease protein 2	Bifidobacterium animalis subsp. lactis AD011 Gene: BLA_1520: Raffinose ABC transporter, permease protein 2	Bifidobacterium bifidum NCIMB 41171	Bifidobacterium breve DSM 20213 Gene: BIFBRE_00614: Raffinose ABC transporter, permease protein 2	Bifidobacterium dentium Bd1 Gene: BDP_2224: Raffinose ABC transporter, permease protein 2	Bifidobacterium gallicum DSM 20093	Bifidobacterium longum NCC2705 Gene: BL1523: Raffinose ABC transporter, permease protein 2	Gardnerella vaginalis 409-05	Raffinose ABC transporter, permease protein 2

CRON 2.
rafR	* Bifidobacterium longum subsp. infantis ATCC 15697 Site: position = -43 score = 5.54311 sequence = TATTTTGTGATTAACGCAATAAA Gene: Blon_2459: Raffinose utilization transcriptional regulator, ROK family	* Bifidobacterium adolescentis ATCC 15703 Site: position = -47 score = 5.52088 sequence = TATTTTGTTATTCTTGGAAAGTA Gene: BAD_1575: Raffinose utilization transcriptional regulator, ROK family	* Bifidobacterium angulatum DSM 20098 Site: position = -22 score = 3.7839 sequence = TAGTTACTCTTGGATAGTAAATA Gene: BIFANG_00405: Raffinose utilization transcriptional regulator, ROK family	* Bifidobacterium animalis subsp. lactis AD011 Site: position = -13 score = 4.14775 sequence = TATTTATATACTCATGGAAACTA Gene: BLA_1523: Raffinose utilization transcriptional regulator, ROK family	Bifidobacterium bifidum NCIMB 41171	* Bifidobacterium breve DSM 20213 Site: position = -25 score = 5.54311 sequence = TATTTTGTGATTAACGCAATAAA Gene: BIFBRE_00617: Raffinose utilization transcriptional regulator, ROK family	* Bifidobacterium dentium Bd1 Site: position = -115 score = 5.2507 sequence = GATTTTGTTATTCTGAGAAAGTA Gene: BDP_2227: Raffinose utilization transcriptional regulator, ROK family	Bifidobacterium gallicum DSM 20093	* Bifidobacterium longum NCC2705 Site: position = -41 score = 5.54311 sequence = TATTTTGTGATTAACGCAATAAA Gene: BL1520: Raffinose utilization transcriptional regulator, ROK family	Gardnerella vaginalis 409-05	Raffinose utilization transcriptional regulator, ROK family

CRON 3.
agaL	Bifidobacterium longum subsp. infantis ATCC 15697 Gene: Blon_2460: Alpha-galactosidase (EC 3.2.1.22)	* Bifidobacterium adolescentis ATCC 15703 Site: position = -104 score = 4.98683 sequence = TACTTTCCGAAAGAAACAAACAC Gene: BAD_1576: Alpha-galactosidase (EC 3.2.1.22)	* Bifidobacterium angulatum DSM 20098 Site: position = -104 score = 5.00118 sequence = TAGTTTCTGAAAACAAGAAACAC Gene: BIFANG_00406: Alpha-galactosidase (EC 3.2.1.22)	Bifidobacterium animalis subsp. lactis AD011 Gene: BLA_1524: Alpha-galactosidase (EC 3.2.1.22)	Bifidobacterium bifidum NCIMB 41171 Gene: BbifN4_010100008850: Alpha-galactosidase (EC 3.2.1.22)	Bifidobacterium breve DSM 20213 Gene: BIFBRE_00618: Alpha-galactosidase (EC 3.2.1.22)	* Bifidobacterium dentium Bd1 Site: position = -106 score = 5.3489 sequence = TACTTTCCGAAAATAAGAAACAC Gene: BDP_2229: Alpha-galactosidase (EC 3.2.1.22)	Bifidobacterium gallicum DSM 20093	Bifidobacterium longum NCC2705 Gene: BL1518: Alpha-galactosidase (EC 3.2.1.22)	Gardnerella vaginalis 409-05	Alpha-galactosidase (EC 3.2.1.22)

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 RafR - Bifidobacteriaceae

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