Rv0472c \Transcriptional regulator, TetR family\\\""

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv0472c \Transcriptional regulator, TetR family\\\"" CDS 562723 563427 - 705 234 TRUE

Rv0472c (\Transcriptional regulator, TetR family\\\"") is predicted to be co-regulated in modules bicluster_0002 with residual 0.45 and bicluster_0249 with residual 0.44.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 2.00 and 11.00 for bicluster_0002 and 0.00 and 0.00 for bicluster_0249 respectively.

These modules are enriched for following go terms: .

This gene is found to be non-essential for growth on cholesterol.

Mutant available?:

Displaying 1 - 8 of 8
Gene Target Differential Expression Distance Expression pvalue Type
Possible membrane protein
No -87 0.13 0.944941 CDS
Programmed cell death toxin YdcE
No 13 -0.78 0.220178 Primary.TSS
No results were found NA 13 Internal.TSS
Fatty acid desaturase occurring in virulence cluster
Repressed 6 -1.76 0.000000434 Primary.TSS
Fatty acid desaturase occurring in virulence cluster
Repressed -11 -2.03 0.00000000102 Primary.TSS
Ferredoxin
Repressed -11 -1.37 0.0000000000441 Primary.TSS
Wax ester synthase/acyl-CoA:diacylglycerol acyltransferase
No -10 0.57 0.935512 Primary.TSS
Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2
No -112 1.57 0.621164 Primary.TSS
Displaying 1 - 2 of 2
ChipSeq TF Differential Expression Distance Expression pvalue Type
\Transcriptional regulator, XRE family\\\""
No -27 -0.49 0.00775649 Primary.TSS
Beta-carotene ketolase (EC 1.14.-.-)
No -12 -0.08 0.999473 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0002
e.value: 
2
Motif Bicluster: 
e.value: 
11
Motif Bicluster: 
0.45
bicluster_0249
e.value: 
0.00001
Motif Bicluster: 
e.value: 
0.00019
Motif Bicluster: 
0.44
Product (LegacyBRC) Product (RefSeq)
PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN [POSSIBLY TETR-FAMILY] TetR family transcriptional regulator
Operon # Operon
318 Rv0471c - Rv0472c
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

not assigned to any KEGG Pathway.
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15607613 NP_214986.1 Run
GO:0005576

extracellular region

extracellular region

Details: 
The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
GO Category: 
cellular_component
272
Total items in this category:  
Description:Expression data from transcription factor over expression experiments. TFOE are matched to the ChIP-seq experiment done simultaneously. This dataset is described in Rustad et al. 2014, Genome Biology.
BioProject Accession GEO Series References Repository Sample Method Sample Type
PRJNA254351 GSM1426488 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426489 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426490 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv0472c_B609 UCSC Browser Tracks
Quantitative Proteomics Data
Cholesterol Essentiality t-test p-value Cholesterol/Glycerol Ratio
non-essential 0.540000 0.80

How essentiality calculations were done?

The relative representation of each mutant was determined by calculating the fold change (sequence reads/insertion in cholesterol divided by sequence reads/insertion in glycerol) for each gene. Statistical significance was determined by t-test. Each insertion site in each replicate sample was treated as a separate data point. The hyperbola used for defining genes specifically required for growth in cholesterol was defined by the formula, y = 3.8/x+0.7. Genes above this line are annotated as required for growth on cholesterol.

Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 11.86 U
D3I 3 3 3.83 11.78 I
D3U 3 3 3.83 11.49 U
D5I 9 5 6.00 10.29 I
D5U 17 5 6.00 11.26 U
D7I 18 7 8.14 10.42 I
D7U 19 7 8.14 11.62 U
D14I 4 14 15.63 5.74 I
D14U 4 14 15.63 10.79 U
D17I 3 17 19.15 3.03 I
D17U 3 17 19.15 10.58 U
D21I 4 21 23.23 2.16 I
D21U 4 21 23.23 10.00 U
D24I 3 24 26.60 1.96 I
D24U 3 24 26.60 10.44 U
D28I 4 28 30.61 1.11 I
D28U 4 28 30.61 9.66 U