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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025910 Open in IMG/M |
| Scaffold ID | Ga0207684_10000001 Open in IMG/M |
| Source Dataset Name | Corn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes) |
| 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) | 1115726 |
| Total Scaffold Genes | 1160 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 676 (58.28%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (75.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Michigan: Kellogg Biological Station | |||||||
| Coordinates | Lat. (o) | 42.3948 | Long. (o) | -85.3738 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F003672 | Metagenome / Metatranscriptome | 474 | Y |
| F011358 | Metagenome / Metatranscriptome | 292 | Y |
| F017939 | Metagenome / Metatranscriptome | 238 | Y |
| F061711 | Metagenome / Metatranscriptome | 131 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207684_100000011112 | F011358 | GAG | MQFMKLHTEGRFEEMWEMIAEDAQRAWGGIQNFVRDMPRLDAWLEILEMQVANVTLLESWTDPLHQRTYSNVARLVMRYRVRQQWKEWTFDRQVHLVPDGGAWRTLCYPTRPRTAASR |
| Ga0207684_10000001206 | F017939 | GGAGG | MPSDADVSRLIRAEVETWSPPRGPDWSDLMIRLAAAGPSPWMIYAAASAALVVILITAFVVGSYLQIGALAPQPIDTHVHH |
| Ga0207684_10000001958 | F061711 | N/A | MVLLVATACGGGPSTVATTAPPPAPILDDHYGFIVGNSVRLESDAKALFVLNIPSDTAGVVSPDGRHLAYLANNELRVIDIVSGAQPRTLFAISAKEGAIYLAWSSDSTGLVVGVNGPLAPVNEGLPAYTKLRVVDAAGGTPRDVITIPGAAVVPLAWDRQTHLISAYESTQGGAGSYDVVSESGTLKRTNSRDGLFVLQSNQDGKHVLGHGDPNNAVRVWPLDSYERGVELRAASDEHVATVAWRPGTAEVGVLFHGDRLELWDANGARRTIALPAAPPSSDRYATLAFRADGKAVVISRQSGVEGDTETYAVVVDLASGRSAVFPVVGNGPLAGTSVHVGP |
| Ga0207684_10000001962 | F003672 | GGAGG | MNRGRLMIEKRKDLASASKWEAQTQALLRDELGRDHAYTKRFEDSLSQPRPESLVAAYGVLWAAYEDALKGDLKPVPKESRPS |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |