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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300020582 Open in IMG/M |
| Scaffold ID | Ga0210395_10000204 Open in IMG/M |
| Source Dataset Name | Forest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-4-O |
| 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) | 46678 |
| Total Scaffold Genes | 41 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 32 (78.05%) |
| 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 | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Massachusetts | |||||||
| Coordinates | Lat. (o) | 42.481016 | Long. (o) | -72.178343 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F011020 | Metagenome / Metatranscriptome | 296 | Y |
| F015323 | Metagenome / Metatranscriptome | 255 | Y |
| F021579 | Metagenome / Metatranscriptome | 218 | Y |
| F076423 | Metagenome / Metatranscriptome | 118 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0210395_1000020411 | F021579 | GGAGG | MQKAHLYEGILSVNRGIDQAVRGMELLKRAKDSGLKPGYFDEKLTLFEMHRALLNGYFCNNIQNSENRDDARFDRLHREYEKKALDEVQVYRDVQAIEERRRLEGRSPKVRFLSSEEQRAWEGLCSNLPGDVASDGERPEGDQK |
| Ga0210395_1000020413 | F076423 | AGGA | MEQRKALATRKARLRSAGRRYPGVQGKVVDYISHSIDDGTLCVNVCFEDKTLFSLRFACDVFIVSADIGDWKTGDYEMIREYIKPIPR |
| Ga0210395_1000020415 | F011020 | N/A | MASEQERLGTGTGKDLRVLCYQHHTEMLLRLLSESAEGVLYACQEPSCLVCYDSSDGYFIDTKNLKIIDEEIKPRVICPNDGHFMYLAEVTPQRRSFRLWKCPECNANRTNEETSGGLEKKMGA |
| Ga0210395_1000020440 | F015323 | GGAGG | VALLTASRRMRPWLLLLLCSVVSAGCNWIYGSSARQDVLYLKRDLSAADLSQWTHRDFGLGTDRGSDSSGAGFLLYHANVAGRRAAGMTVTPTAHASPAASSDSVYLWDRSQYWNYQPYEIWLRTSVMFPSAATIEAAGAPGEAAFAPTTGEWNWFLEFHNDSSPLPDCANEFANLSLDVKTDDPVASGVVGTKNPRMAMRIIGGNDCAPDIVWVDGPPLQWDHWYELLLHIKWDPKRGIAEWYLDNSDVPYYSNQEIPTLFTRPKGYLSPSYTNLTIPNYRLHAPWSSTIYIGPLAVGSTKSSVLNVF |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |