Rv0065

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv0065 vapC1 CDS 71821 72222 + 402 133 FALSE

Rv0065 () is predicted to be co-regulated in modules bicluster_0051 with residual 0.43 and bicluster_0414 with residual 0.45.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 34.00 for bicluster_0051 and 65.00 and 550.00 for bicluster_0414 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?:

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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
Transcriptional regulator, TetR family
No 29 0 0.999356 CDS
Motif 1 Motif 2 Residual
bicluster_0051
e.value: 
0.0018
Motif Bicluster: 
e.value: 
34
Motif Bicluster: 
0.43
bicluster_0414
e.value: 
65
Motif Bicluster: 
e.value: 
550
Motif Bicluster: 
0.45
Product (LegacyBRC) Product (RefSeq)
Putative uncharacterized protein
Operon # Operon
43
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics
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
15607207 NP_214579.1 Run
GO:0040008

regulation of growth

regulation of growth

Details: 
Any process that modulates the frequency, rate or extent of the growth of all or part of an organism so that it occurs at its proper speed, either globally or in a specific part of the organism's development.
GO Category: 
biological_process
27
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.
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.480000 2.25

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:
p-value INH: