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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300007545 Open in IMG/M |
| Scaffold ID | Ga0102873_1000405 Open in IMG/M |
| Source Dataset Name | Estuarine microbial communities from the Columbia River estuary - metaG 1547B-3 |
| 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) | 15351 |
| Total Scaffold Genes | 25 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 16 (64.00%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (80.00%) |
| Associated Families | 5 |
| Taxonomy | |
|---|---|
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Columbia River Estuary, USA | |||||||
| Coordinates | Lat. (o) | 46.2314 | Long. (o) | -123.8828 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F005562 | Metagenome / Metatranscriptome | 396 | Y |
| F036143 | Metagenome | 170 | N |
| F090065 | Metagenome | 108 | N |
| F095452 | Metagenome | 105 | N |
| F104708 | Metagenome | 100 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0102873_100040513 | F005562 | AGGA | MARPNIQIDDEVREMTEEEYAELLASGWTEEGTSDLAG* |
| Ga0102873_100040518 | F104708 | GAG | MVNPTDHLDQALANLWANTRPKATDVLIRNLRAHAYSYAMDDAALCEDLRQAIGRLEHPSALEPQPRSIVERLDDIVQELHDLGHTQLGGETDQLLIAIDNALRGAK* |
| Ga0102873_100040523 | F090065 | AGG | MSKVLVTLDYEELEYCAISGARRNIRAMQKDRKPRDNTKYSAQNWWQSNITGVIGEYAVAKSLGEHWQDLEVDRGGFDVLNYQVRSTEHTSPKLAARPNDDLNHIYILAQVHKHRVLIHGWATGYEIQQLGAPEYGAIRLHHDMLNDMSLLPHPTIYTAQVQEWERPDYQ* |
| Ga0102873_100040524 | F095452 | AGG | MSNIAKPRMSEADRLELRALFSQLADLQANEILEELEHQPQQANGLKQDLWGLQARLDDIHADANT* |
| Ga0102873_10004059 | F036143 | N/A | MYLKGSVNKMPADASYKVYGIQEALAEINKVDRVLRRQITKDIQSGAGTKLVTAARSFIPTASPLSRMVNGNMIKGRDGTGWKRERVLAGIRTVVGKRGQRARTVRFSNGRTADFKATQYQLLVLQQKDVAGAIWDHAGIRGGGQFVANLEAEGETVGPRTAPRALEPAANSVLPAVEDEVGKIVAQVMTIVNRNLVTTRTR* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |