Organism : Rhodobacter sphaeroides 2.4.1 | Module List :
Regulation information for RSP_2466(Mouseover regulator name to see its description)
Motif information (de novo identified motifs for modules)
There are 4 motifs predicted.
|Motif Id||e-value||Consensus||Motif Logo|
Module neighborhood information for RSP_2466
|Gene||Common Name||Description||Module membership|
|RSP_0181||RSP_0181||ABC nitrate/sulfonate/bicarbonate transporter, inner membrane subunit (NCBI)||193, 342|
|RSP_0206||RSP_0206||hypothetical protein (NCBI)||235, 303|
|RSP_0212||RSP_0212||HNH nuclease (NCBI)||74, 193|
|RSP_0213||RSP_0213||Phage terminase-like protein large subunit (NCBI)||193, 325|
|RSP_0234||tlpL||TlpL, putative cytoplasmic chemoreceptor (NCBI)||138, 235|
|RSP_0615||RSP_0615||Putative oxidoreductase (NCBI)||138, 193|
|RSP_1332||RSP_1332||H+-transporting two-sector ATPase, alpha/beta subunit (NCBI)||235, 359|
|RSP_1619||RSP_1619||hypothetical protein (NCBI)||189, 235|
|RSP_1620||RSP_1620||hypothetical protein (NCBI)||235, 342|
|RSP_1647||RSP_1647||probable peptidase (NCBI)||191, 193|
|RSP_1648||RSP_1648||hypothetical protein (NCBI)||193, 355|
|RSP_1782||RSP_1782||hypothetical membrane protein (NCBI)||233, 235|
|RSP_1783||RSP_1783||Predicted membrane protein (NCBI)||233, 235|
|RSP_1957||RSP_1957||hypothetical protein (NCBI)||138, 235|
|RSP_1961||RSP_1961||hypothetical protein (NCBI)||235, 355|
|RSP_2034||RSP_2034||possible CAAX amino terminal protease family (NCBI)||235, 380|
|RSP_2040||RSP_2040||possible Transposase fragment (NCBI)||138, 235|
|RSP_2043||RSP_2043||hypothetical protein (NCBI)||235, 380|
|RSP_2068||RSP_2068||putative ClpP-like protease (NCBI)||235, 304|
|RSP_2232||RSP_2232||putative uracil-DNA glycosylase (NCBI)||38, 193|
|RSP_2466||RSP_2466||hypothetical protein (NCBI)||193, 235|
|RSP_2467||RSP_2467||Putative large terminase (NCBI)||191, 193|
|RSP_2468||RSP_2468||putative portal protein (NCBI)||193, 236|
|RSP_2469||RSP_2469||hypothetical protein (NCBI)||193, 236|
|RSP_2470||RSP_2470||putative prohead protease (NCBI)||193, 236|
|RSP_2471||RSP_2471||Predicted phage phi-C31 gp36 major capsid-like protein (NCBI)||193, 235|
|RSP_2472||RSP_2472||hypothetical protein (NCBI)||193, 235|
|RSP_2473||RSP_2473||hypothetical protein (NCBI)||191, 193|
|RSP_2475||RSP_2475||putative phage tail minor protein (NCBI)||191, 193|
|RSP_2477||RSP_2477||hypothetical protein (NCBI)||189, 193|
|RSP_2478||RSP_2478||hypothetical protein (NCBI)||193, 235|
|RSP_2479||RSP_2479||putative phage host specificity protein (NCBI)||235, 320|
|RSP_2480||RSP_2480||hypothetical protein (NCBI)||193, 235|
|RSP_2794||RSP_2794||Putative monooxygenase beta subunit (NCBI)||103, 193|
|RSP_2795||RSP_2795||Putative regulatory protein of multicomponent monooxygenase (NCBI)||103, 193|
|RSP_2871||aglG||ABC alpha-glucoside transporter, inner membrane subunit AglG (NCBI)||229, 235|
|RSP_2930||RSP_2930||hypothetical protein (NCBI)||235, 238|
|RSP_2990||RSP_2990||hypothetical protein (NCBI)||235, 380|
|RSP_2996||RSP_2996||putative prohead protease (NCBI)||14, 235|
|RSP_2997||RSP_2997||putative head portal protein (NCBI)||14, 235|
|RSP_3030||RSP_3030||ABC peptide/opine transporter, inner membrane subunit (NCBI)||193, 282|
|RSP_3032||RSP_3032||ABC peptide/opine transporter, ATPase subunit (NCBI)||193, 282|
|RSP_3033||RSP_3033||ABC peptide/opine transporter, ATPase subunit (NCBI)||193, 282|
|RSP_3034||RSP_3034||ABC peptide/opine transporter, periplasmic substrate-binding protein (NCBI)||193, 282|
|RSP_3064||RSP_3064||transcriptional regulator, DeoR family (NCBI)||235, 292|
|RSP_3201||RSP_3201||putative oxidoreductase (NCBI)||138, 235|
|RSP_3390||RSP_3390||ABC Fe3+-siderophores transporter, ATPase subunit (NCBI)||146, 235|
|RSP_3417||RSP_3417||TonB dependent outer membrane ferrichrome-iron receptor (NCBI)||235, 380|
|RSP_3624||RSP_3624||hypothetical protein (NCBI)||235, 307|
|RSP_3684||solR||transcriptional regulator, LuxR family (NCBI)||116, 235|
Gene Page Help
If the gene is associated with a module(s), its connection to given modules along with other members of that module are shown as network by using CytoscapeWeb. In this view, each green colored circular nodes represent module member genes, purple colored diamonds represent module motifs and red triangles represent regulators. Each node is connected to module (Bicluster) via edges. This representation provides quick overview of all genes, regulators and motifs for modules. It also allows one to see shared genes/motifs/regulators among diferent modules.
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If the gene is a member of a module, regulators influencing that module are also considered to regulate the gene. Regulators table list total number of regulatory influences, regulators, modules and type of the influence.
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Network inference algorithm uses de novo motif prediction for assigning genes to modules. If there are any motifs identified in the upstream region of a gene, the motif will be shown here. For each motif sequence logo, consensus and e-value will be shown.
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Identity of gene members in a module may help to identify potential interactions between different functional modules. Therefore, neighbor genes that share the same module(s) with gene under consideration are shown here. For each memebr, gene name, description and modules that contain it are listed.
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- 1. All genomic elements for the organism are represented as a circle and each element is separated by black tick marks. In this example chromosome and pDV represent main chromosome and plasmid for D. vulgaris Hildenborough, respectively.
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