Rv3095 Transcriptional regulator, HxlR family

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv3095 Transcriptional regulator, HxlR family CDS 3463973 3464449 + 477 158 TRUE

Rv3095 (Transcriptional regulator, HxlR family) is predicted to be co-regulated in modules bicluster_0033 with residual 0.56 and bicluster_0599 with residual 0.61.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.00 for bicluster_0033 and 0.00 and 0.00 for bicluster_0599 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 11/20/2020 - 12:12
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-18223 MT3179 1768
Displaying 1 - 2 of 2
Gene Target Differential Expression Distance Expression pvalue Type
Pigment protein
Repressed 20 -3.42 0.0000000000746 Primary.TSS
Transcriptional regulator, HxlR family
Induced -32 2.32 0.00000000000000991 Primary.TSS
Displaying 1 - 3 of 3
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, HxlR family
Induced -32 2.32 0.00000000000000991 Primary.TSS
Transcriptional regulator, TetR family
No -7 -0.82 0.121968 Primary.TSS
Lactate-responsive regulator LldR in Enterobacteria, GntR family
No -22 -0.66 0.067873 Primary.TSS
Product (LegacyBRC) Product (RefSeq)
Uncharacterized HTH-type transcriptional regulator Rv3095_MT3179 putative transcriptional regulatory protein
Operon # Operon
2024
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
15610232 NP_217611.1 Run
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.
BioProject Accession GEO Series References Repository Sample Method Sample Type
PRJNA254351 GSM1426916 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426917 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426918 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426919 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426920 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv3095_B315 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.460000 1.42

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: 0.000000000701192
p-value INH: 0.294669
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 14.94 U
D3I 3 3 3.83 15.52 I
D3U 3 3 3.83 14.91 U
D5I 9 5 6.00 15.11 I
D5U 17 5 6.00 14.69 U
D7I 18 7 8.14 15.74 I
D7U 19 7 8.14 14.84 U
D14I 4 14 15.63 15.83 I
D14U 4 14 15.63 14.55 U
D17I 3 17 19.15 15.85 I
D17U 3 17 19.15 14.18 U
D21I 4 21 23.23 16.03 I
D21U 4 21 23.23 14.33 U
D24I 3 24 26.60 16.00 I
D24U 3 24 26.60 13.97 U
D28I 4 28 30.61 16.15 I
D28U 4 28 30.61 14.14 U