Rv3736 Transcriptional regulator, AraC family

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv3736 Transcriptional regulator, AraC family CDS 4186634 4187695 + 1 062 353 TRUE

Rv3736 (Transcriptional regulator, AraC family) is predicted to be co-regulated in modules bicluster_0040 with residual 0.36 and bicluster_0185 with residual 0.52.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 1,400.00 and 3,700.00 for bicluster_0040 and 1,500.00 and 29,000.00 for bicluster_0185 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?:

Displaying 1 - 10 of 70
Gene Target Differential Expression Distance Expression pvalue Type
Phosphoheptose isomerase (EC 5.3.1.-)
No -15 0.52 0.696773 CDS
Short-chain dehydrogenase/reductase SDR
No -108 -0.13 0.93638 CDS
PE family protein
No -29 0.45 0.621701 Internal.TSS
No -50 0.16 0.945033 Primary.TSS
MCE-family protein Mce1D
No -94 0.09 0.976536 Antisense.TSS
FIG033430: Probable conserved MCE associated membrane protein
No -99 -0.09 0.945819 Primary.TSS
Beta-glucosidase (EC 3.2.1.21)
No -7 -0.1 0.956347 CDS
Lysophospholipid acyltransferase
No -16 0.08 0.946656 CDS
Nitrate/nitrite transporter
No -31 -0.24 0.922183 CDS
PPE family protein
No 21 0.64 0.93638 Primary.TSS
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, AraC family
Induced -60 3.92 0 Antisense.TSS
Product (LegacyBRC) Product (RefSeq)
TRANSCRIPTIONAL REGULATORY PROTEIN [PROBABLY ARAC_XYLS-FAMILY] transcriptional regulatory protein AraC/XylS-family
Operon # Operon
2440 -
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
15610872 NP_218253.1 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 GSM1427029 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1427030 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1427031 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv3736_B641 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.080000 0.94

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.

TRIP log2 fold abundance change

reports the log2 abundance fold change of each TFI strain, relative to no induction, in absence or presence of drug, averaged across experimental replicates. Also reported are the accompanying z-scores and two-sided t-test p-values for each TFI strain under each condition. Please refer to Ma et al., 2020, Nature Microbiology for more information.

p-value Untreated: 0.292827
p-value INH: 0.51664
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 13.23 U
D3I 3 3 3.83 12.83 I
D3U 3 3 3.83 12.87 U
D5I 9 5 6.00 14.35 I
D5U 17 5 6.00 14.39 U
D7I 18 7 8.14 12.81 I
D7U 19 7 8.14 12.36 U
D14I 4 14 15.63 9.51 I
D14U 4 14 15.63 11.57 U
D17I 3 17 19.15 7.47 I
D17U 3 17 19.15 11.22 U
D21I 4 21 23.23 6.92 I
D21U 4 21 23.23 11.51 U
D24I 3 24 26.60 3.20 I
D24U 3 24 26.60 11.01 U
D28I 4 28 30.61 5.25 I
D28U 4 28 30.61 11.27 U