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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027899 Open in IMG/M |
| Scaffold ID | Ga0209668_10000184 Open in IMG/M |
| Source Dataset Name | Freshwater lake sediment microbial communities from the University of Notre Dame, USA, for methane emissions studies - PLP11 PL (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) | 26452 |
| Total Scaffold Genes | 45 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 9 (20.00%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (25.00%) |
| 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? |
|---|---|---|---|
| F001883 | Metagenome / Metatranscriptome | 622 | Y |
| F034186 | Metagenome | 175 | N |
| F035312 | Metagenome | 172 | Y |
| F063706 | Metagenome | 129 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209668_1000018429 | F063706 | N/A | MAKKVGRPRKVDVIIETNKAEIEYHKDGTNHDLKYDGKKVDVHITKDETGTKVEVQSENKFLKALATLASKFIVKRFKKK |
| Ga0209668_1000018432 | F035312 | N/A | MNFNEIAFTIITILISGVAYFLKGVHSDIKALAEEQKRIIETQGRLKGKIELVDNESRFKYEAIEKMTQLEIKHLAEQISELTQSVKKLIEVQLTR |
| Ga0209668_1000018441 | F001883 | N/A | MARYANTGEFNVLYPTRRRMATILKRIIRNDVVDGQGTLVESIRINAKITGFEKLEIQIIAMYYFIFLNNGAFLWNGGVITPRDYVATFTQELNAAGITAEIYSQYTEWMTKRYPILQVAEILEKNQKIVYTFEALDPPAGFQVGYPLDV |
| Ga0209668_100001847 | F034186 | AGGAG | VHRYVGRYGSKTLTSGMKEQLDRYVANNYSEVLKYTRHFLKVLNIPASIDADAVINNAYIHCTKVHLPEMTQDKAKSYLLNTIKYELIWTQGSRTKRDDIYRSQEHLGDDIDDTTDLDHKIQIEERYSFKKAMVEIYRSQQHDRIKQIVFEAYYDKGHSTQTALAKYFNINSTSAYFLIKEIKENIKSIQYRYEEC |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |