Rv0324 Transcriptional regulator, ArsR family

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv0324 Transcriptional regulator, ArsR family CDS 391352 392032 + 681 226 TRUE

Rv0324 (Transcriptional regulator, ArsR family) is predicted to be co-regulated in modules bicluster_0498 with residual 0.51 and bicluster_0546 with residual 0.58.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 6.30 for bicluster_0498 and 0.00 and 0.21 for bicluster_0546 respectively.

These modules are enriched for following go terms: .

This gene is found to be non-essential for growth on cholesterol.

Mutant available?:

Displaying 1 - 10 of 161
Gene Target Differential Expression Distance Expression pvalue Type
DNA recombination and repair protein RecF
Induced 27 0.79 0.0000000000000725 Primary.TSS
Nitronate monooxygenase
No -41 -0.34 0.0210134 CDS
No -71 0.14 0.453665 Internal.TSS
No -131 0.14 0.453665 Internal.TSS
Replicative DNA helicase (EC 3.6.1.-) @ intein-containing
Induced -71 0.66 0.00000000244 Primary.TSS
Oxidoreductase
Induced -12 1.73 0.00000000848 Internal.TSS
MCE-family protein Mce1B
No 48 0.08 0.785491 CDS
FIG030769: Probable conserved MCE associated membrane protein
No -13 -0.15 0.0641765 Primary.TSS
PROBABLE CONSERVED TRANSMEMBRANE PROTEIN
No 5 0.36 0.0401787 CDS
POSSIBLE METHYLTRANSFERASE CLUSTERED WITH NadR
No 32 -0.18 0.410603 CDS
Displaying 1 - 7 of 7
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulatory protein
No -41 -0.06 0.882301 CDS
Histone protein Lsr2
No -20 0.48 0.271291 CDS
HTH-type transcriptional regulator
No -49 0.44 0.276076 CDS
Transcriptional regulator, ArsR family
Repressed -22 -1.65 0.000000963 CDS
DNA-binding response regulator TrcR
No -42 -0.12 0.917788 CDS
Transcriptional regulator, ArsR family
Induced 1 4.7 0 CDS
transcriptional regulator, ArsR family
Repressed -49 -0.74 0.000307649 CDS
Motif 1 Motif 2 Residual
bicluster_0498
e.value: 
0.00043
Motif Bicluster: 
e.value: 
6.3
Motif Bicluster: 
0.51
bicluster_0546
e.value: 
0.0017
Motif Bicluster: 
e.value: 
0.21
Motif Bicluster: 
0.58
Product (LegacyBRC) Product (RefSeq)
POSSIBLE TRANSCRIPTIONAL REGULATORY PROTEIN [POSSIBLY ARSR-FAMILY] ArsR family transcriptional regulator
Operon # Operon
225 Rv0324 - Rv0325 - Rv0326
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
15607465 NP_214838.1 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 GSM1426452 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426453 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426454 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426455 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426456 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426457 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426452 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426453 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426454 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426455 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv0324_B156 UCSC Browser Tracks
Rv0324_B284 UCSC Browser Tracks
Rv0324_B316 UCSC Browser Tracks
Rv0324_B327 UCSC Browser Tracks
Rv0324_B328 UCSC Browser Tracks
Rv0324_B549 UCSC Browser Tracks
Quantitative Proteomics Data
Cholesterol Essentiality t-test p-value Cholesterol/Glycerol Ratio
non-essential 0.620000 1.40

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.

Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 9.75 U
D3I 3 3 3.83 9.21 I
D3U 3 3 3.83 9.54 U
D5I 9 5 6.00 9.00 I
D5U 17 5 6.00 11.09 U
D7I 18 7 8.14 6.42 I
D7U 19 7 8.14 8.94 U
D14I 4 14 15.63 3.03 I
D14U 4 14 15.63 6.75 U
D17I 3 17 19.15 I
D17U 3 17 19.15 5.68 U
D21I 4 21 23.23 1.11 I
D21U 4 21 23.23 5.41 U
D24I 3 24 26.60 I
D24U 3 24 26.60 5.48 U
D28I 4 28 30.61 1.11 I
D28U 4 28 30.61 4.81 U