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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027853 Open in IMG/M |
| Scaffold ID | Ga0209274_10000012 Open in IMG/M |
| Source Dataset Name | Reference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF1 (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) | 215389 |
| Total Scaffold Genes | 216 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 167 (77.31%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (100.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions. |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: New Hampshire, Hubbard Brook experimental Forest | |||||||
| Coordinates | Lat. (o) | Long. (o) | Alt. (m) | Depth (m) | Location on Map | |||
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000136 | Metagenome / Metatranscriptome | 1961 | Y |
| F001867 | Metagenome / Metatranscriptome | 624 | Y |
| F002692 | Metagenome / Metatranscriptome | 536 | Y |
| F004330 | Metagenome / Metatranscriptome | 443 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209274_10000012142 | F002692 | GAG | MSRLAMSLIAYLVLGALAFATLSDPRIRLLTLLILAMFAVKSWLRRKDVMHPDSNGETK |
| Ga0209274_10000012211 | F001867 | GAGG | MARISPDQFWFDKYLEFHCDDCGSDTGFRSRRRTFSEKYLLPIFLLQPVRCAECFRRDYRLLFVPVQERLPEVIKKVPTPASRPDRNVA |
| Ga0209274_1000001263 | F000136 | GAGG | MAKARLKILYGEGDAEAQAVTAASFEKAGHTVEKAVGRKAVEAAINKGGFDLVVLGPTLSRNDRHHLPYMAKKAHATVSVLVMHADGSRHPYVDACTDTGASVENVLARIEGMAIAGMMPAAAGAAAGK |
| Ga0209274_1000001273 | F004330 | GGAG | MKDAGKTARVLLATFSRPPQASGEDVNGSIVIAAESATAIPGLTEAAQYFGLVDKAAEAQGFELDDDPYEFAVGTKTVVRGDFQKDVGTRVMRQSTLVVLARGYAVSFTFIGGTEDEVEESVAGLSFAAAATAHPH |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |