Rv1255c Possible oxidoreductase subunit

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv1255c Possible oxidoreductase subunit CDS 1402778 1403386 - 609 202 TRUE

Rv1255c (Possible oxidoreductase subunit) is predicted to be co-regulated in modules bicluster_0464 with residual 0.52 and bicluster_0497 with residual 0.53.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.03 and 2.20 for bicluster_0464 and 310.00 and 800.00 for bicluster_0497 respectively.

These modules are enriched for following go terms: 3-hydroxyacyl-CoA dehydrogenase activity.

This gene is found to be for growth on cholesterol.

Mutant available?:

Displaying 1 - 10 of 33
Gene Target Differential Expression Distance Expression pvalue Type
Possible lipoprotein LprO
No 47 -0.3 0.165949 Primary.TSS
Possible membrane protein
Induced 34 0.74 0.000507617 Primary.TSS
POSSIBLE MYCOLIC ACID SYNTHASE UMAA1
No -6 0.12 0.757056 Primary.TSS
No -109 0.27 0.485097 Internal.TSS
No -135 0.27 0.485097 Antisense.TSS
No -70 0.27 0.485097 CDS
Repressed -135 -0.79 0.00000000108 Primary.TSS
Aldehyde dehydrogenase (EC 1.2.1.3)
Induced -58 1.18 0.00000474 CDS
Adenylyl cyclase class-3/4/guanylyl cyclase
No 30 0.6 0.0896391 Primary.TSS
Cyclohexanone monooxygenase (EC 1.14.13.22)
No -32 -0.03 0.977471 Primary.TSS
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
Repressed 34 -1 0.00571578 CDS
Product (LegacyBRC) Product (RefSeq)
Uncharacterized HTH-type transcriptional regulator Rv1255c_MT1294 transcriptional regulatory protein
Operon # Operon
854 -
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
15608395 NP_215771.1 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 GSM1426643 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426644 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426645 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426646 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426647 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv1255c_B168 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.720000 1.82

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: 0.0000000324608
p-value INH: 0.988908
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D28I 4 28 30.61 I
D17I 3 17 19.15 I
D24I 3 24 26.60 I
D21I 4 21 23.23 1.11 I
D14I 4 14 15.63 2.76 I
D7I 18 7 8.14 7.05 I
D21U 4 21 23.23 7.68 U
D28U 4 28 30.61 7.73 U
D17U 3 17 19.15 7.82 U
D24U 3 24 26.60 7.96 U
D3I 3 3 3.83 8.00 I
D14U 4 14 15.63 8.01 U
D3U 3 3 3.83 8.49 U
D5I 9 5 6.00 9.49 I
D0U 27 0 0.00 9.84 U
D7U 19 7 8.14 10.18 U
D5U 17 5 6.00 11.09 U