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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027896 Open in IMG/M |
| Scaffold ID | Ga0209777_10000936 Open in IMG/M |
| Source Dataset Name | Freshwater lake sediment microbial communities from the University of Notre Dame, USA, for methane emissions studies -HBP12 HB (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) | 44874 |
| Total Scaffold Genes | 63 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 53 (84.13%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (75.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → Lentic → Sediment → Freshwater Lake Sediment → Freshwater Lake Sediment Microbial Communities From The University Of Notre Dame, Usa, Of Lakes That Contribute To Methane Emissions |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | University of Notre Dame, Indiana, USA | |||||||
| Coordinates | Lat. (o) | 41.7 | Long. (o) | -86.23 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F008072 | Metagenome / Metatranscriptome | 339 | Y |
| F016782 | Metagenome / Metatranscriptome | 244 | Y |
| F017814 | Metagenome / Metatranscriptome | 238 | Y |
| F020318 | Metagenome / Metatranscriptome | 224 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209777_1000093610 | F016782 | GGAG | MTTPVLATLYAAATESLVSDASATSTFEKMIAEAFTHGTVDTFQRDLLETEKQIKKEFEVKSMPGPWRSGKSVLLSAMKLNIKLVDTNGTYFGKTALQNKIKAMKTDTKEPVSWNQHADKIIKLLMDIPAEVDASLVYRAVSDFIKHAD |
| Ga0209777_1000093617 | F017814 | AGGAG | MAQNDFDFVAFTNATSRKPAGLQIYLAQQLLSNALWSMDNYDNPRADDVRGILGEVKALRSRLADDKAARARASGSEKIDSGER |
| Ga0209777_1000093620 | F008072 | N/A | MKRKTSTDRRYKRSIWTQNQKLQAVSTYLMLGNLSETAIVTGIPLPTLKIWKTSDWFKEFALQLQTEDVQQMDSNLKRVIDKALKAVEDRLDLGDAQFDQRTGKITRVPVKAHVALKITTDLLTKQDKIREAPVKEEIEKTIDDRLLRLSEEFARFASMKTIDVQGQIVEQA |
| Ga0209777_1000093623 | F020318 | AGGAG | MALEKVTLENFEEWQHHPVTKQFMKQLRDDREQLKEGLAMGTFEDDAEIKGRCRVIAVILDIRYEDMFQQ |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |