Rv2324 Transcriptional regulator, AsnC family

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv2324 Transcriptional regulator, AsnC family CDS 2596334 2596780 + 447 148 TRUE

Rv2324 (Transcriptional regulator, AsnC family) is predicted to be co-regulated in modules bicluster_0346 with residual 0.51 and bicluster_0420 with residual 0.47.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.14 for bicluster_0346 and 0.00 and 0.00 for bicluster_0420 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?:

Displaying 1 - 10 of 128
Gene Target Differential Expression Distance Expression pvalue Type
Chromosomal replication initiator protein DnaA
No 65 -0.54 0.0700302 Primary.TSS
Cell division protein FtsI [Peptidoglycan synthetase] (EC 2.4.1.129)
No 9 -0.11 0.900955 CDS
ThiJ/PfpI family protein
No 47 -0.15 0.907098 CDS
Serine hydroxymethyltransferase (EC 2.1.2.1)
No 19 -0.52 0.461172 Primary.TSS
Dihydroflavonol-4-reductase (EC 1.1.1.219)
No -83 0.13 0.880555 Antisense.TSS
Butyryl-CoA dehydrogenase (EC 1.3.99.2)
No 65 -0.4 0.143449 Primary.TSS
MCE-family protein Mce1D
No -78 0.08 0.959901 Antisense.TSS
No 0 -0.07 0.924573 Primary.TSS
tRNA (guanine46-N7-)-methyltransferase (EC 2.1.1.33)
No 0 -0.14 0.889255 Internal.TSS
No -143 -0.09 0.94346 CDS
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, AraC family
No 58 0.88 0.0930512 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0346
e.value: 
0.000000000000091
Motif Bicluster: 
e.value: 
0.14
Motif Bicluster: 
0.51
bicluster_0420
e.value: 
0.000000058
Motif Bicluster: 
e.value: 
0.00025
Motif Bicluster: 
0.47
Product (LegacyBRC) Product (RefSeq)
PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN [PROBABLY ASNC-FAMILY] AsnC family transcriptional regulator
Operon # Operon
1530
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
15609461 NP_216840.1 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 GSM1426815 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426816 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426817 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426818 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426815 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426816 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426817 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426818 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv2324_B131 UCSC Browser Tracks
Rv2324_B354 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.780000 1.08

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: 0.0000286156
p-value INH: 0.910292
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 12.79 U
D3I 3 3 3.83 12.85 I
D3U 3 3 3.83 13.00 U
D5I 9 5 6.00 13.44 I
D5U 17 5 6.00 14.02 U
D7I 18 7 8.14 11.63 I
D7U 19 7 8.14 12.96 U
D14I 4 14 15.63 5.04 I
D14U 4 14 15.63 12.17 U
D17I 3 17 19.15 3.15 I
D17U 3 17 19.15 11.85 U
D21I 4 21 23.23 7.99 I
D21U 4 21 23.23 12.32 U
D24I 3 24 26.60 I
D24U 3 24 26.60 12.06 U
D28I 4 28 30.61 4.59 I
D28U 4 28 30.61 12.59 U