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

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
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