Gene
Name:	cspG
Synonym(s):	ECK0980, G6511, b0990
Genome position(nucleotides):	1051461 --> 1051673 Genome Browser
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	44.13
External database links:

ASAP:	ABE-0003346
ECHOBASE:	EB3993
ECOLIHUB:	cspG
OU-MICROARRAY:	b0990
STRING:	511145.b0990
COLOMBOS:	cspG

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	cspHp8	1051205	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: poor homology. Score: 3.735. P-value: 4.725e-5 Read more >	[ICWHO]	[8]
promoter	cspHp10	1051278	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.943. P-value: 8.190e-5 Read more >	[ICWHO]	[8]
promoter	cspHp12	1051284	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 4.249. P-value: 4.773e-5 Read more >	[ICWHO]	[8]
promoter	cspHp14	1051304	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 5.566. P-value: 4.690e-6 Read more >	[ICWHO]	[8]
promoter	cspGp	1051305	forward	nd	[AIPP], [RS-EPT-CBR]	[9], [10]
promoter	cspHp15	1051307	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 7.075. P-value: 2.232e-5 Read more >	[ICWHO]	[8]
promoter	cspHp9	1051330	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.843. P-value: 5.381e-5 Read more >	[ICWHO]	[8]
promoter	cspHp13	1051373	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 4.72. P-value: 2.300e-5 Read more >	[ICWHO]	[8]
promoter	ymcEp3	1051830	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.573. P-value: 9.142e-5 Read more >	[ICWHO]	[8]

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

Reference(s)
[1] Higuchi K., Yabuki T., Ito M., Kigawa T., 2020, Cold shock proteins improve E. coli cell-free synthesis in terms of soluble yields of aggregation-prone proteins., Biotechnol Bioeng 117(6):1628-1639
[2] Kram KE., Henderson AL., Finkel SE., 2020, Escherichia coli Has a Unique Transcriptional Program in Long-Term Stationary Phase Allowing Identification of Genes Important for Survival., mSystems 5(4)
[3] Nahku R., Peebo K., Valgepea K., Barrick JE., Adamberg K., Vilu R., 2011, Stock culture heterogeneity rather than new mutational variation complicates short-term cell physiology studies of Escherichia coli K-12 MG1655 in continuous culture., Microbiology 157(Pt 9):2604-2610
[4] Nakashima K., Kanamaru K., Mizuno T., Horikoshi K., 1996, A novel member of the cspA family of genes that is induced by cold shock in Escherichia coli., J Bacteriol 178(10):2994-7
[5] Uppal S., Jawali N., 2015, Cyclic AMP receptor protein (CRP) regulates the expression of cspA, cspB, cspG and cspI, members of cspA family, in Escherichia coli., Arch Microbiol 197(3):497-501
[6] Verbenko VN., Kuznetsova LV., Luchkina LA., Klonov NV., 2009, [Mutation in the cspH-cspG gene cluster enhances expression of heat-shock proteins and SOS repair system of Escherichia coli]., Genetika 45(9):1194-202
[7] Xia B., Ke H., Inouye M., 2001, Acquirement of cold sensitivity by quadruple deletion of the cspA family and its suppression by PNPase S1 domain in Escherichia coli., Mol Microbiol 40(1):179-88
[8] 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
[9] 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.
[10] Wang N., Yamanaka K., Inouye M., 1999, CspI, the ninth member of the CspA family of Escherichia coli, is induced upon cold shock., J Bacteriol 181(5):1603-9

RNA cis-regulatory element

Attenuation:	Translational