Rv3900c Vegetative cell wall protein gp1 precursor

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv3900c Vegetative cell wall protein gp1 precursor FALSE

Rv3900c (Vegetative cell wall protein gp1 precursor) is predicted to be co-regulated in modules bicluster_0163 with residual 0.45 and bicluster_0519 with residual 0.54.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 280.00 and 3,400.00 for bicluster_0163 and 1,600.00 and 7,500.00 for bicluster_0519 respectively.

These modules are enriched for following go terms: [protein-PII] uridylyltransferase activi... organonitrogen compound metabolic proces..., carboxylic acid biosynthetic process, organic acid biosynthetic process, small molecule metabolic process.

This gene is found to be for growth on cholesterol.

Mutant available?:

BASS Score Distance to Tuberculist Start Codon Internal TSS Re-Annotated Start Tuberculist Annotated Start
-0.683 636 4385672 4386269 4386308
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
transcriptional regulator, ArsR family
No 56 -0.01 0.972268 CDS
Motif 1 Motif 2 Residual
bicluster_0163
e.value: 
280
Motif Bicluster: 
e.value: 
3400
Motif Bicluster: 
0.45
bicluster_0519
e.value: 
1600
Motif Bicluster: 
e.value: 
7500
Motif Bicluster: 
0.54
Product (LegacyBRC) Product (RefSeq)
Operon # Operon
2547 -
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
15611036 NP_218417.1 Run
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:  
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
0.910000 1.56

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: