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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300003505 Open in IMG/M |
| Scaffold ID | JGIcombinedJ51221_10002795 Open in IMG/M |
| Source Dataset Name | Forest soil microbial communities from Harvard Forest LTER, USA - Combined assembly of forest soil metaG samples (ASSEMBLY_DATE=20140924) |
| 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) | 4872 |
| Total Scaffold Genes | 7 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 3 (42.86%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (33.33%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae | (Source: IMG/M) |
| 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) | 42.53312 | Long. (o) | -72.189707 | Alt. (m) | Depth (m) | 0 to .1 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001772 | Metagenome / Metatranscriptome | 637 | Y |
| F006357 | Metagenome / Metatranscriptome | 375 | Y |
| F022277 | Metagenome / Metatranscriptome | 215 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| JGIcombinedJ51221_100027952 | F022277 | N/A | MPAALGRRSGSQLLSWTQDTVVAIPQALPAPKPKRKHSLLPILITLFLVSYGLMCLLAVEQDRTIAAQRYLIXSLLGDSSELSNLKGKLIQKQYAEAQAQAKAGSRSQAQTPSTQVPSTQAPMTQAPMTQDKPGGNAQSSHNAGKARKTVPPKPPLGISDIVDGRRIVETI* |
| JGIcombinedJ51221_100027955 | F001772 | AGGAGG | MRNRILFVLATPLLFVAGYLVGNRSATVAYAETPARGTVPKSYGRLVTAIADQIGTGLVFEGSDGVIRFVSITGMKEGELARYDQTPTQGGIPKSYGRLVTAVVNSEGTGLIFEDSDGVIRFVTIAGKKEGELTRN* |
| JGIcombinedJ51221_100027957 | F006357 | N/A | GSIESFNISAGVPVPNGDEQNSTGSRGGNTYPSGVDITQDGHYVIFGDTATSTVVEVSDISSGKLTPTVVYHLGNGISSSNILLSPDETLLYISNTQGDKITAAFFDKSTGKLSKGCVSGSLRGYVTDWSYLGSLALGETTGTGGTVYVAEFGQPSSIAEIKVTSAGGKCTLKEAPNSPVSDPNSPGLLSIGAFPPRPF* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |