 |
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300001661 Open in IMG/M |
| Scaffold ID | JGI12053J15887_10007471 Open in IMG/M |
| Source Dataset Name | Mediterranean Blodgett CA OM1_O3 (Mediterranean Blodgett coassembly) |
| 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) | 5874 |
| Total Scaffold Genes | 11 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 7 (63.64%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (100.00%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Tardiphaga → Tardiphaga robiniae | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Multiple Locations In Canada And Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | El Dorado National Forest, Georgetown, California, USA | |||||||
| Coordinates | Lat. (o) | 38.88 | Long. (o) | -120.64 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F003018 | Metagenome / Metatranscriptome | 513 | Y |
| F004466 | Metagenome / Metatranscriptome | 437 | Y |
| F018133 | Metagenome / Metatranscriptome | 236 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| JGI12053J15887_1000747110 | F004466 | GGAGG | VSITRDDDITGIYELLDAIEAVIKAADPAKREGLARTIDAYAEDFPDDFFWATGSQAPTLLNHMLNTIDSACRPEAQSKPRPAIRLVDRKPEGNA* |
| JGI12053J15887_100074715 | F003018 | AGG | MAGRDTWEKAESLAKIFAAVFIPVVLGVASLLANQALERSKTRDDLLKQAIDVVFLSKTDKMAGDGKSFESRRAHRSHWLEIYNSLSDVKLSNEFIAITMEQDTIADEKVLYWIGNLPGLIPNTESARGSESTDEDELGHGWVTVGRLNSERYSDLNFNVPSQGIERNGTIKPHEIIRARWSVTLRSSTLNLEDRQGYTGTSRGLLWGGACGKVMDSLVDARVQTWAFIEIVQCPATTKSDPGFERSAMSGARSFIR* |
| JGI12053J15887_100074719 | F018133 | GGGGG | MRVLYVALLAFVCCTGALAEQNTSPRLIPMGCNFDGARAWLALGKASAGPELGFFRVEIPDVDLEHVDATISPSSMDMFMPYGQGPVVGPISVSSISIGPRVVDGVPNGNVVTVHFSILSSHSNPADFLKPAAISYILVLNDKSTGCQR* |
| ⦗Top⦘ |
|
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |