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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025939 Open in IMG/M |
| Scaffold ID | Ga0207665_10000086 Open in IMG/M |
| Source Dataset Name | Corn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L11-2 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) | 60660 |
| Total Scaffold Genes | 47 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 39 (82.98%) |
| 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 → Acidobacteria | (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) | 42.4774 | Long. (o) | -85.451 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000430 | Metagenome / Metatranscriptome | 1149 | Y |
| F001189 | Metagenome / Metatranscriptome | 753 | Y |
| F104854 | Metagenome | 100 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207665_1000008620 | F000430 | AGTAG | MVFQTRKQNLEPVAEPEAGRPAGTGEEWLGRNRSSKRRLWERLNPLSRKQIRVIAEALALQQTHAQLPEPLRARLSAAAGEVERLASRLRALLAEVARRTPPRA |
| Ga0207665_1000008646 | F001189 | N/A | VDKLPLLVFGPLAIAAVLLVIATGIRQTIARFRSRPTPDQLRATYEAYLRRLLDPQPEAVEKELGKLLPESLLRLYEDRSAVQSVGFQLEKPGKRWWPKRWQVYCFEPLDLESLNELPYEEELGPGFCFATTGRGSWYWIAASDLRAKDSPVIFLDYDSGRSHGETVAATLDEFLNWPRFPTP |
| Ga0207665_1000008647 | F104854 | GAGG | MPTPTGTTAPTQTKTLESRVPGSVMVEVAPPPVPSRSNPLRKPTHAEAKSKLKTGMGILIFGLVVGGALLYFGFKILGGAALLFFGGGGLAIVLGRKDEVAACPFCGAVLDNLPKPNPDNVPRPVQCKKCWEYSGLQKGSVSPYNPNAMEERPTFRAPVAQTVVWPRACVQCGAEPTRFEEVSTSNLSAGFLVVGTVRVKTFKLSGVPYCNAHKKAVEMSTGIGNKLYLDWRSLAMMRRYLAANRGRF |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |