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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300028381 Open in IMG/M |
| Scaffold ID | Ga0268264_10000095 Open in IMG/M |
| Source Dataset Name | Switchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S3-2 (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) | 230806 |
| Total Scaffold Genes | 186 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 138 (74.19%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (66.67%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Switchgrass 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? |
|---|---|---|---|
| F020218 | Metagenome / Metatranscriptome | 225 | Y |
| F028212 | Metagenome / Metatranscriptome | 192 | Y |
| F047518 | Metagenome | 149 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0268264_10000095160 | F028212 | GGAGG | MDHIQFKTNQTAAGYVANGLDELTQEAFELHMMGCSECVADVEVWRAIKLEMPRQHGNVRTLTPRRKLAAFSDWRMAASLVGAGVLGATGGWLGKATTATDLDSTRTVVFNLPSVSRGADDCTAVRLASDTRLAVLRVPGISKDLRVVALDSEKRELPAGDYTSRIQPDGSQLLQINTSLLAGRQVHLEARRADGTGEPLGCITGSLP |
| Ga0268264_10000095163 | F020218 | AGGAG | MPSSRKFILASAIAAQCLVGSLAGSPAQAADIPDNFFQEWTVSKNCTEQHAGLAARVAKGLKFRISRDTKAADGSYVFQTENTGQQRWNANWGGIKLQYRPGPEMKTLPADFECIPGQEASSSFLAMSNYAQATEPQYEQRHWYALARINGQLEHILIFPSTSASGPKAVIVMQSVTASNSIQLDDNGVIHLD |
| Ga0268264_1000009598 | F047518 | N/A | MDEARRIVRFRGGVSCRRDEGPLGLTLIGRTIDRSDEIATLAFVGSAPRGLPEALEDATVEQVGPGQYRIWSGRREWVFAARSAHLHREVATTFYRAIAPRMVPWGKKLFWRIVLSMVSSRFGKSLLLTLRRR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |