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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_10001162 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) | 29356 |
| Total Scaffold Genes | 30 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 24 (80.00%) |
| Novel Protein Genes | 6 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 6 (100.00%) |
| Associated Families | 6 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: UniRef50) |
| 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? |
|---|---|---|---|
| F000996 | Metagenome / Metatranscriptome | 810 | Y |
| F006451 | Metagenome / Metatranscriptome | 373 | Y |
| F012952 | Metagenome / Metatranscriptome | 275 | Y |
| F025584 | Metagenome / Metatranscriptome | 201 | Y |
| F035065 | Metagenome / Metatranscriptome | 173 | Y |
| F052726 | Metagenome | 142 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207684_100011621 | F035065 | GGAGG | MTDREVEAISDFLRHFGSFGCRQICVRRAEPRPRTPEDVGRFVLASLAAWRAEGLDAERLYKVATIAIHFDAYKLLWSMCMPACCRPWGEVEPACPPGPGRPLTGAQLQQALLRAVPIGPPAAPDAPFPDDL |
| Ga0207684_1000116213 | F006451 | AGGAG | VGSPVGCMSEPAGRVHGIRQKILAGHLPKENCRMTWYGPGTGGVCVACEQPIAADDVEVECDLPTGGTIRLHRGCYDIWVAEWPTCDVG |
| Ga0207684_100011622 | F025584 | GAGG | VGDPRLDESRRWGVFWIHHEAEELRVHHRATIPAADARAVVVTLLASGRVPPLQATLFDIDCVTGQPILHRFWGTAYRRDDTVYLILFINERCLVLALSG |
| Ga0207684_1000116224 | F012952 | GGAGG | MTRRWPGIVVAALCLLTLATSASAEGAWTLWMMGASSPWDSVATFPTREQCVEALHQQAQAVEKLGLKVTEDVPGGSFAGTDADRDIRGKCLPETVDPRK |
| Ga0207684_1000116225 | F052726 | GGAGG | MTESSASKSEHVYRGWKIRITDTAVDTKFSARVEVWKPEHDPRSHSGIVVPFLKRAASPADAHAAALEAAEGWIDEDMV |
| Ga0207684_100011626 | F000996 | GGAG | MSSLKRWRRVGQGQFHKWAQAGEEFEGTWRGAHDGRYGPLGTLETPEGLITFPLPTALVERLRLVREGAEVMIQYTGMQTSKAGRPFKGFEVYVAGDGMQEAPAEPPRFGGPGEGA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |