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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300026999 Open in IMG/M |
| Scaffold ID | Ga0207949_1000172 Open in IMG/M |
| Source Dataset Name | Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF044 (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) | 3662 |
| Total Scaffold Genes | 5 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 4 (80.00%) |
| Novel Protein Genes | 2 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (50.00%) |
| Associated Families | 2 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylobacteriaceae → Microvirga → Microvirga massiliensis | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Harvard Forest LTER, Petersham, MA, USA | |||||||
| Coordinates | Lat. (o) | 42.550409 | Long. (o) | -72.180244 | Alt. (m) | Depth (m) | 0 to .1 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000295 | Metagenome / Metatranscriptome | 1349 | Y |
| F033905 | Metagenome / Metatranscriptome | 176 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207949_10001721 | F000295 | N/A | SSSNLGDQILALATGKTQQEIAAACKGARPNHVGAALARHKRAGLIEERDGKLYAIPSTRTDQPAAL |
| Ga0207949_10001722 | F033905 | AGCAG | VFRYADHAELQGNEHPEQGSRRTQPDLPMRTLACLLLGAAMVGLYHLLPRTRPGPPCRAALLVLSGFILAQGGLSAAIVALGLVPKGSFHDLLHQLTGYDGERPVILFIGSSFSEKGIDPDVLAEVLGSSGRAAAVQRLAVGGSPHLERLHYLKECLARAKRKPQLVLFEIAGGYDSGPLYQVHQMRFSDRMVAMMDGSSAWWALRWLVSAGDLSLSERFMLGSEILGQLALHVSHIGFLWNSAPVRQATTYDIAGSSPPTRFSDDDAAKLVEQAAAARDLKPDWPQDVPTRWMSAFLAEEIAMLQRHSVKRFAFYSVPSMQGANVAYARRFCAAITKFACIIGEDPELLADLRHGADWYDFDHLQGAAREVFTRWLGDRLVEMGVWP |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |