RegulonDB

Gene
Name:	arpB
Synonym(s):	ECK1718, G6926, b1720, b1721, b4494, ydiW, ydiX
Type:	Pseudo Gene
Genome position(nucleotides):	1803094 --> 1804993 Genome Browser
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	39.05
External database links:

ASAP:	ABE-0005740
ASAP:	ABE-0005742
ASAP:	ABE-0285095
OU-MICROARRAY:	b1720
OU-MICROARRAY:	b1721
PortEco:	arpB_1
PortEco:	arpB_2
UNIPROT:	P76205
COLOMBOS:	arpB

Product

Name:

putative ankyrin repeat protein B, N-terminal fragment

Sequence:

Get amino acid sequence Fasta Format

Isoelectric point:

9.648

Motif(s):

Type	Positions	Sequence
	1 -> 157	MSQNDIIIRTHYKSPHRLHIDSDIPTPSSEPINQFARQLITLLDTSDLSSMLSYCVTQEFTANCRKISQNCYSTALFTINFATSPIHTENILITLHYKKEIISLLLETTPIKANHLRSILDYIEQEQLTAEDRNHCMKLSKKIHREKNYTPNSKSQW

Classification:

Multifun Terms (GenProtEC)
Gene Ontology Terms (GO)

Note(s):

Note(s): ...[more].

External database links:

DIP:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

PRIDE:

PROSITE:

PROSITE:

SMART:

SMR:

UNIPROT:

Operon

Name:

arpB

Operon arrangement:

Transcription unit	Promoter

Elements in the selected gene context region unrelated to any object in RegulonDB

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_2023	1800817	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2024	1800819	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2025 (cluster)	1801170	reverse	For this promoter, there is a cluster of 2 transcription start sites,in the interval 1801169 to 1801170, where the highest frequency is at position 1799194. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[1]
promoter	TSS_2026	1801273	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2027	1801278	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2029	1801426	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2030	1801552	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2031	1801633	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2032	1802563	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2033 (cluster)	1802626	reverse	For this promoter, there is a cluster of 2 transcription start sites,in the interval 1802625 to 1802626, where the highest frequency is at position 1800649. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[1]
promoter	TSS_2034	1802634	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2035	1802637	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_2036	1802699	reverse	nd	[RS-EPT-CBR]	[1]
promoter	yniDp6	1805101	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.82. P-value: 4.632e-5 Read more >	[ICWHO]	[2]

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] 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.
[2] 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

Reference(s)

[1] 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.

[2] 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