Gene
Name:	nudJ
Synonym(s):	ECK1120, G6580, b1134, ymfB
Genome position(nucleotides):	1193827 <-- 1194288 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	50.22
External database links:

ASAP:	ABE-0003818
ECHOBASE:	EB3220
OU-MICROARRAY:	b1134
PortEco:	nudJ
STRING:	511145.b1134
COLOMBOS:	nudJ

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_1476	1192966	reverse	nd	[RS-EPT-CBR]	[5]
promoter	TSS_1477	1193560	reverse	nd	[RS-EPT-CBR]	[5]
promoter	TSS_1478	1193801	reverse	nd	[RS-EPT-CBR]	[5]
promoter	nudJp6	1194437	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 7.096. P-value: 4.119e-6 Read more >	[ICWHO]	[6]
promoter	TSS_1479 (cluster)	1194944	reverse	For this promoter, there is a cluster of 2 transcription start sites,in the interval 1194943 to 1194944, where the highest frequency is at position 1194166. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[5]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates
[ICWHO] Inferred computationally without human oversight

Reference(s)
[1] Bao F., Yan H., Sun H., Yang P., Liu G., Zhou X., 2015, Hydrolysis of by-product adenosine diphosphate from 3'-phosphoadenosine-5'-phosphosulfate preparation using Nudix hydrolase NudJ., Appl Microbiol Biotechnol 99(24):10771-8
[2] Hong MK., Kim JK., Ahn YJ., Kang LW., 2009, Crystallization and preliminary diffraction studies of Nudix hydrolase YmfB from Escherichia coli K-1., Protein Pept Lett 16(1):101-4
[3] Kumar A., Beloglazova N., Bundalovic-Torma C., Phanse S., Deineko V., Gagarinova A., Musso G., Vlasblom J., Lemak S., Hooshyar M., Minic Z., Wagih O., Mosca R., Aloy P., Golshani A., Parkinson J., Emili A., Yakunin AF., Babu M., 2016, Conditional Epistatic Interaction Maps Reveal Global Functional Rewiring of Genome Integrity Pathways in Escherichia coli., Cell Rep 14(3):648-61
[4] Wang PH., Khusnutdinova AN., Luo F., Xiao J., Nemr K., Flick R., Brown G., Mahadevan R., Edwards EA., Yakunin AF., 2018, Biosynthesis and Activity of Prenylated FMN Cofactors., Cell Chem Biol 25(5):560-570.e6
[5] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.
[6] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78