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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025315 Open in IMG/M |
| Scaffold ID | Ga0207697_10039659 Open in IMG/M |
| Source Dataset Name | Switchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA, with PhiX - S5 (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) | 1932 |
| Total Scaffold Genes | 5 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 4 (80.00%) |
| 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 → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Kellogg Biological Station, Michigan, USA | |||||||
| Coordinates | Lat. (o) | 42.3948 | Long. (o) | -85.3738 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000453 | Metagenome / Metatranscriptome | 1120 | Y |
| F001440 | Metagenome / Metatranscriptome | 694 | Y |
| F042052 | Metagenome / Metatranscriptome | 159 | Y |
| F081616 | Metagenome / Metatranscriptome | 114 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207697_100396591 | F081616 | N/A | MSDSFNNVVRLSSERRERADRQRALASAYRLEAAVAHIPADVRSAVVKAVAKALKQERPDAFRRLPWPWCERLLEWWDLRIETK |
| Ga0207697_100396592 | F001440 | AGG | MPNAKSIGWAIYAAGFVVWLFGYLSAGHVSVIDWPWWISSFVPNLEAELGLALMFASMIPIYWRAGRKRT |
| Ga0207697_100396594 | F000453 | GGAG | VRIKFEATDASGKAHKRSSTNHVYSHCLVVHFAAHPPSTLWPKGIAACSHAEWAANPALAERKAHRWRKEPSVEAIEILEARQV |
| Ga0207697_100396595 | F042052 | GAGG | MRYIVTVAALILSYGPTASHAQRVYESGNDSCGKYLAAVHGHAPGKGTGFKDRWRGQFYDDHTRYMDWLGGFVTATNLWVLNEPNSIRGDQSAIDVWIRKWCEQNPTKTLVEAAYAFVWDQRKEYLEALGARQAR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |