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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025922 Open in IMG/M |
| Scaffold ID | Ga0207646_10041736 Open in IMG/M |
| Source Dataset Name | Corn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 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) | 4123 |
| Total Scaffold Genes | 12 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 9 (75.00%) |
| 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 → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium | (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? |
|---|---|---|---|
| F000432 | Metagenome / Metatranscriptome | 1148 | Y |
| F006774 | Metagenome / Metatranscriptome | 365 | Y |
| F010452 | Metagenome / Metatranscriptome | 303 | Y |
| F028745 | Metagenome / Metatranscriptome | 190 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207646_1004173612 | F028745 | N/A | LERLGLALVGFAVAVVVAGVLLGLIGTWIKRGQRATGRR |
| Ga0207646_100417366 | F006774 | AGGAGG | VLSSRSPTTGASGVTRAGVVPPGGRPIRSLFCTGNAPMAEQQTATCRACSQTISPEDTIVFGYGLLGHLDCRRPRVLSAEERTLLFIYCRDHQVGECIRCTARLHLREVASLDLGVRSYMCPWCHTDLTDSIRAHFYGCAMLPAEVRRRAQAAREAGRSLVRQSQRLRDAADLARREAEATLHALRNAMRQSPLKRRE |
| Ga0207646_100417367 | F000432 | GGAG | MPDEAVLRAKAREVLRTGKLPSRPPDHTWGGTGAGAPCPVCGETVTKDQLEIEAEFARDGDNPGLDKFHVHVTCFAAWELERRQDGPHS |
| Ga0207646_100417369 | F010452 | GGAG | MAITFKVDSTTAEGTFIRVLRDGRPFGKILDAVGLYRFYEADHEKLGSADLKDVNLDRLKTAIQSRYERRG |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |