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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300019883 Open in IMG/M |
| Scaffold ID | Ga0193725_1000001 Open in IMG/M |
| Source Dataset Name | Soil microbial communities from a riparian zone of the East river system, Colorado, United States ? H2a2 |
| Source Dataset Category | Metagenome |
| Source Dataset Use Policy | Open |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Sequencing Status | Permanent Draft |
| Scaffold Components | |
|---|---|
| Scaffold Length (bps) | 116588 |
| Total Scaffold Genes | 118 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 84 (71.19%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (80.00%) |
| Associated Families | 5 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil And Sediment Microbial Communities From The East River, Co, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: East River, Colorado | |||||||
| Coordinates | Lat. (o) | 38.9866 | Long. (o) | -107.0007 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F002155 | Metagenome / Metatranscriptome | 589 | Y |
| F052898 | Metagenome / Metatranscriptome | 142 | Y |
| F063430 | Metagenome | 129 | N |
| F068627 | Metagenome | 124 | Y |
| F068642 | Metagenome | 124 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0193725_100000127 | F068642 | AGGAG | MQTPLGREIPEALRRHNEEQRRDPEDVVSELGWRVRVVVLWRQSEDDPERWIYLERMLPGKFSYETVKQQWGGGAYRIRLFGAWNRARRQEKYITQVAFWIHRGFQSTPALRARLREVARRPLKD |
| Ga0193725_100000128 | F063430 | AGG | MGRARPDLIRVLEENPPGPQAGIRLVRRVRTREYVTEIGPRGYLSQIEAAAFLGKSVVAVNRYVRLGLLKDVTRYGISMIQLAELRRFRRECLEGGKGGRLRRNAGVELRRRTTS |
| Ga0193725_100000129 | F068627 | AGGAG | VSVSERKDHGLRLESATKMSAVEPLLTATDVGCLLAIATKRVYEVVGHLAVQLAPHTLRWRLSDIAALIEERRRSK |
| Ga0193725_100000181 | F052898 | AGGAG | MRASSQTRLSDRRRALLDQASVALRGQIVALWRLTGGEAVAELVSRSGLPQLVEFDVAGLLQRWGRVAPAGSLWVGCRIDPDHWQVAPVRSDPPEPPPTGIERRSSERLVMELAGFSLGALERIWTAADQATVYLCSALCILDVCLGRIRTAQVLTPGVQAHLLSDLAGVADAIDNALSA |
| Ga0193725_100000197 | F002155 | N/A | MRKSEFEMRNGLALEFRISHFAFLLFLTACTPTTTRPAFAPIPEAPYVVINARPERVTQVADSLLRGDTIGVRFVNLRDAFLETNAFAGTHRLRLWADPDVPGKSRVTIEAVYRPTEDPSRTRRDLERAAPPGSAGQLRAEQLLAALKDKLGVTTY |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |