Rv1626 response regulator

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv1626 response regulator CDS 1828180 1828797 + 618 205 TRUE

Rv1626 (response regulator) is predicted to be co-regulated in modules bicluster_0102 with residual 0.50 and bicluster_0264 with residual 0.45.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.26 and 81.00 for bicluster_0102 and 1,300.00 and 940.00 for bicluster_0264 respectively.

These modules are enriched for following go terms: .

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

Mutant available?:

Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
No results were found
Motif 1 Motif 2 Residual
bicluster_0102
e.value: 
0.26
Motif Bicluster: 
e.value: 
81
Motif Bicluster: 
0.50
bicluster_0264
e.value: 
1300
Motif Bicluster: 
e.value: 
940
Motif Bicluster: 
0.45
Product (LegacyBRC) Product (RefSeq)
Probable two-component system transcriptional regulator two-component system transcriptional regulator
Operon # Operon
1066 Rv1626
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
15608764 NP_216142.1 Run
GO:0008150

biological_process

biological_process

Details: 
Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
GO Category: 
biological_process
66
Total items in this category:  
GO:0000160

two-component signal transduction system (phosphorelay)

two-component signal transduction system (phosphorelay)

Details: 
A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
GO Category: 
biological_process
4
Total items in this category:  
GO:0005886

plasma membrane

plasma membrane

Details: 
The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
GO Category: 
cellular_component
1284
Total items in this category:  
GO:0040007

growth

growth

Details: 
The increase in size or mass of an entire organism, a part of an organism or a cell.
GO Category: 
biological_process
621
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 GSM1426699 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426700 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426701 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv1626_B455 UCSC Browser Tracks
Quantitative Proteomics Data
Cholesterol Essentiality t-test p-value Cholesterol/Glycerol Ratio
essential 0.000000 0.01

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 14.31 U
D3I 3 3 3.83 14.58 I
D3U 3 3 3.83 15.30 U
D5I 9 5 6.00 13.46 I
D5U 17 5 6.00 13.94 U
D7I 18 7 8.14 12.62 I
D7U 19 7 8.14 14.09 U
D14I 4 14 15.63 12.19 I
D14U 4 14 15.63 15.59 U
D17I 3 17 19.15 9.34 I
D17U 3 17 19.15 15.78 U
D21I 4 21 23.23 8.89 I
D21U 4 21 23.23 15.52 U
D24I 3 24 26.60 5.93 I
D24U 3 24 26.60 15.65 U
D28I 4 28 30.61 6.89 I
D28U 4 28 30.61 15.14 U