Organism : Rhodobacter sphaeroides 2.4.1 | Module List :
Putative translation initiation inhibitor, yjgF family / putative Endoribonuclease L-PSP (NCBI)
Functional Annotations (1)
|Putative translation initiation inhibitor, yjgF family||cog/ cog|
Regulation information for RSP_1223(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|
Functional Enrichment for RSP_1223
|Putative translation initiation inhibitor, yjgF family||cog/ cog|
Module neighborhood information for RSP_1223
|Gene||Common Name||Description||Module membership|
|RSP_0005||guaA||GMP synthase (glutamine-hydrolyzing) (NCBI)||166, 258|
|RSP_0366||RSP_0366||Adenylosuccinate synthetase (NCBI)||192, 258|
|RSP_0568||RSP_0568||Isoleucyl-tRNA synthetase, class Ia (NCBI)||15, 258|
|RSP_0586||RSP_0586||probable nicotinate-nucleotide adenylyltransferase (NCBI)||7, 215|
|RSP_0650||RSP_0650||Probable transglycosylase (NCBI)||7, 33|
|RSP_0778||ProS||Prolyl-tRNA synthetase, class IIa (NCBI)||166, 258|
|RSP_0859||leuB||hypothetical protein (NCBI)||121, 258|
|RSP_0866||RSP_0866||hypothetical protein (NCBI)||7, 357|
|RSP_0879||RSP_0879||hypothetical protein (NCBI)||7, 65|
|RSP_0895||RSP_0895||phosphodiesterase-like (NCBI)||7, 175|
|RSP_0896||RSP_0896||hypothetical protein (NCBI)||7, 87|
|RSP_0949||ostB||putative trehalose-6-phosphate phosphatase (NCBI)||7, 368|
|RSP_1003||pyrC||Dihydroorotase and related cyclic amidohydrolases (NCBI)||224, 258|
|RSP_1005||gshA||putative glutathione synthetase (NCBI)||7, 181|
|RSP_1006||RSP_1006||hypothetical protein (NCBI)||7, 10|
|RSP_1187||RSP_1187||hypothetical protein (NCBI)||7, 59|
|RSP_1219||grpE||putative chaperone protein GrpE (heat shock protein) (NCBI)||7, 187|
|RSP_1221||rph||ribonuclease PH (NCBI)||192, 258|
|RSP_1222||ham1||putative Ham1p_like protein, Ham1 family (NCBI)||192, 258|
|RSP_1223||tdcF||Putative translation initiation inhibitor, yjgF family / putative Endoribonuclease L-PSP (NCBI)||7, 258|
|RSP_1337||aarF||probable ubiquinone biosynthesis protein (NCBI)||7, 108|
|RSP_1350||serB||phosphoserine phosphatase (NCBI)||258, 279|
|RSP_1380||RSP_1380||hypothetical protein (NCBI)||7, 175|
|RSP_1387||RSP_1387||AMP nucleosidase (NCBI)||7, 308|
|RSP_1468||RSP_1468||Site-specific DNA-methyltransferase (NCBI)||7, 218|
|RSP_1570||purK||Phosphoribosylaminoimidazole carboxylase, ATPase subunit (NCBI)||7, 374|
|RSP_1775||RSP_1775||hypothetical protein (NCBI)||7, 240|
|RSP_1855||RSP_1855||hypothetical protein (NCBI)||160, 258|
|RSP_1856||glyQ||Heterodimeric glycyl-transfer RNA synthetase (NCBI)||109, 258|
|RSP_1857||RSP_1857||hypothetical protein (NCBI)||160, 258|
|RSP_1858||glyS||Glycyl-tRNA synthetase, beta subunit (NCBI)||160, 258|
|RSP_1874||carA||Carbamoyl-phosphate synthase, small chain (NCBI)||258, 263|
|RSP_1969||purM||Phosphoribosylformylglycinamidine cyclo-ligase (NCBI)||258, 372|
|RSP_1995||gltX||Glutamyl-tRNA synthetase (NCBI)||15, 258|
|RSP_2104||RSP_2104||hypothetical protein (NCBI)||7, 298|
|RSP_2243||hisA||phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (NCBI)||160, 258|
|RSP_2270||gatA||Glutamyl-tRNA (Gln) amidotransferase, subunit A (NCBI)||258, 349|
|RSP_2544||RSP_2544||Protein-L-isoaspartate O-methyltransferase (NCBI)||7, 72|
|RSP_2651||RSP_2651||hypothetical protein (NCBI)||7, 110|
|RSP_2652||RSP_2652||putative Acetyltransferase (NCBI)||7, 110|
|RSP_2715||RSP_2715||hypothetical protein (NCBI)||7, 114|
|RSP_2716||lpxB||putative lipid-A-disaccharide synthase (NCBI)||7, 240|
|RSP_2804||tgt||Probable queuine tRNA ribosyltransferase (NCBI)||190, 258|
|RSP_2868||RSP_2868||Putative inosine-5'-monophosphate dehydrogenase (NCBI)||224, 258|
|RSP_2875||glk||putative glucokinase (NCBI)||160, 258|
|RSP_2917||RSP_2917||putative cystathionine gamma-synthase beta-lyase (NCBI)||7, 383|
|RSP_2918||RSP_2918||Predicted ferripyochelin binding protein (NCBI)||258, 263|
|RSP_2919||RSP_2919||Probable Guanylate kinase (NCBI)||258, 263|
|RSP_2920||RSP_2920||hypothetical protein (NCBI)||258, 263|
|RSP_2950||RSP_2950||Transcriptional regulator, LysR family (NCBI)||7, 263|
|RSP_2951||purL||FGAM synthase synthetase domain (NCBI)||203, 258|
|RSP_3209||cbiQ||ABC cobalt transporter, inner membrane subunit, CbiQ (NCBI)||7, 100|
|RSP_3237||lguL||Lactoylglutathione lyase (NCBI)||7, 301|
|RSP_3551||hisS||Histidyl-tRNA synthetase (NCBI)||160, 258|
|RSP_3564||RSP_3564||Generic methyltransferase (NCBI)||7, 215|
|RSP_4041||tyrS||Tyrosyl-tRNA synthetase, class Ib (NCBI)||15, 258|
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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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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CircVisOur circular module explorer is adapted from visquick originally developed by Dick Kreisberg of Ilya Shmulevich lab at ISB for The Cancer Genome Atlas. We use simplified version of visquick to display distribution of module members and their interactions across the genome. This view provides summary of regulation information for a gene. The main components are;
- 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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