Rv0007 Possible conserved membrane protein

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv0007 Possible conserved membrane protein CDS 9914 10828 + 915 304 FALSE

Rv0007 (Possible conserved membrane protein) is predicted to be co-regulated in modules bicluster_0154 with residual 0.56 and bicluster_0161 with residual 0.58.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 6.50 and 19,000.00 for bicluster_0154 and 1,500.00 and 11,000.00 for bicluster_0161 respectively.

These modules are enriched for following go terms: nitrate reductase complex, nitrate reductase activity, oxidoreductase activity, acting on other... purine-containing compound biosynthetic ....

This gene is found to be 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_0154
e.value: 
6.5
Motif Bicluster: 
e.value: 
19000
Motif Bicluster: 
0.56
bicluster_0161
e.value: 
1500
Motif Bicluster: 
e.value: 
11000
Motif Bicluster: 
0.58
Product (LegacyBRC) Product (RefSeq)
Uncharacterized protein Rv0007_MT0007
Operon # Operon
4
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
15607149 NP_214521.1 Run
GO:0005887

integral to plasma membrane

integral to plasma membrane

Details: 
Penetrating at least one phospholipid bilayer of a plasma membrane. May also refer to the state of being buried in the bilayer with no exposure outside the bilayer.
GO Category: 
cellular_component
101
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
0.530000 4.47

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: