Rv0012 FIG215594: Membrane spanning protein

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv0012 FIG215594: Membrane spanning protein CDS 14089 14877 + 789 262 FALSE

Rv0012 (FIG215594: Membrane spanning protein) is predicted to be co-regulated in modules bicluster_0018 with residual 0.62 and bicluster_0079 with residual 0.57.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.55 and 25.00 for bicluster_0018 and 0.70 and 11.00 for bicluster_0079 respectively.

These modules are enriched for following go terms: potassium ion transport.

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

BASS Score New Primary UTR Primary TSS Re-Annotated Start Tuberculist Annotated Start
-1.553 67 14067 14134 14089
Last update: 10/16/2017 - 16:54
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-19054 MT0015 1822
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 2 of 2
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, IclR family
No 16 -0.14 0.697686 Primary.TSS
Transcriptional regulator, MarR family
No -71 -0.16 0.671562 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0018
e.value: 
0.55
Motif Bicluster: 
e.value: 
25
Motif Bicluster: 
0.62
bicluster_0079
e.value: 
0.7
Motif Bicluster: 
e.value: 
11
Motif Bicluster: 
0.57
Product (LegacyBRC) Product (RefSeq)
PROBABLE CONSERVED MEMBRANE PROTEIN
Operon # Operon
9 -
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
15607154 NP_214526.1 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:  
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
0.050000 0.52

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: