Rv1116

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv1116 CDS 1241003 1241188 + 186 61 FALSE

Rv1116 () is predicted to be co-regulated in modules bicluster_0214 with residual 0.47 and bicluster_0569 with residual 0.58.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 56.00 and 3.00 for bicluster_0214 and 500.00 and 460.00 for bicluster_0569 respectively.

These modules are enriched for following go terms: purine-nucleoside phosphorylase activity.

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 - 10 of 23
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, MarR family
No -71 -0.3 0.328342 CDS
DNA-binding response regulator
No -85 -0.25 0.379715 CDS
Transcriptional repressor EthR, TetR family
No -85 0.07 0.963275 CDS
Transcriptional regulator, IclR family
No -53 -0.01 0.989448 CDS
Two component transcriptional regulatory protein DevR
No -76 0.07 0.733852 CDS
Transcriptional regulator, XRE family
No -73 0.05 0.951548 CDS
\Transcriptional regulator, XRE family\\\""
No -72 0.1 0.858135 CDS
WhiB-type transcription regulator
No -88 -0.09 0.999973 CDS
Transcriptional regulator, TetR family
No -63 0.19 0.999974 CDS
RNA polymerase sigma-54 factor RpoN
No -81 -0.26 0.408089 CDS
Motif 1 Motif 2 Residual
bicluster_0214
e.value: 
56
Motif Bicluster: 
e.value: 
3
Motif Bicluster: 
0.47
bicluster_0569
e.value: 
500
Motif Bicluster: 
e.value: 
460
Motif Bicluster: 
0.58
Product (LegacyBRC) Product (RefSeq)
Putative uncharacterized protein
Operon # Operon
754
PATRIC Locus Tag Enzyme Name Transcriptomics
NA
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
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
0.420000 3.00

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: