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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027721 Open in IMG/M |
| Scaffold ID | Ga0209492_1013717 Open in IMG/M |
| Source Dataset Name | Freshwater sediment microbial communities from Prairie Pothole Lake near Jamestown, North Dakota, USA - PPLs Lake P7 Core (1) Depth 10-12cm May2015 (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) | 2736 |
| Total Scaffold Genes | 8 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 7 (87.50%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (100.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → Sediment → Unclassified → Freshwater Sediment → Freshwater Sediment Microbial Communities From Cottonwood Lakes Research Site Near Jamestown, North Dakota, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | near Jamestown, North Dakota | |||||||
| Coordinates | Lat. (o) | 47.0956 | Long. (o) | -99.1001 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000403 | Metagenome / Metatranscriptome | 1177 | Y |
| F000903 | Metagenome / Metatranscriptome | 843 | Y |
| F001897 | Metagenome / Metatranscriptome | 620 | Y |
| F009883 | Metagenome / Metatranscriptome | 311 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209492_10137172 | F000903 | GAG | MITRVQEIQCLLAAINHAVDRTGDHETRRQKTPSWFEFVGQMAEAYSAEWVVADRLGYDYTPGMTKGKTVADVGEHIEVKWSANPASNLWIQESDRHDRDVAVLVVGNAPKMQIVGWIPVVMAKKPRYRNNSQNNWTVPQINLQPIETLMRSNYAHPVV |
| Ga0209492_10137173 | F000403 | GGA | MSDYMEILNPQAMTARLYYQGEVISEYKIEQCDKCSKLAKFDKFGYQKGYDKADNIIWFCGECR |
| Ga0209492_10137174 | F001897 | AGGCGG | MSFMDNYEGNKDRTDRWIATYPLGRLEAHIIEFNAEKGYVLVQAKAWRNQDETEPAGIDYAFGYREAYPEKMRRWMIEDTTTSALMRVMALVMGGAEKSTKETMEKVNAADVYDPWTTKFGDLPSYKTAAEAEMAGTPSFGSSEETPKAAPECRHGAMRWNQSKPDAPKSWGGYFCSEKIKEHQCTPRWYVLRSTGQWDAQV |
| Ga0209492_10137175 | F009883 | GGAG | MNELSIVIFMVIAGALWALMAYAVGFKEGQRQGYTRGRAVSRHISQLDQAAK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |