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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300033978 Open in IMG/M |
| Scaffold ID | Ga0334977_0000642 Open in IMG/M |
| Source Dataset Name | Freshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME28Sep2014-rr0002 |
| 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) | 20889 |
| Total Scaffold Genes | 29 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 12 (41.38%) |
| Novel Protein Genes | 6 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (16.67%) |
| Associated Families | 6 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Wisconsin | |||||||
| Coordinates | Lat. (o) | 43.0995 | Long. (o) | -89.4045 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001055 | Metagenome / Metatranscriptome | 791 | Y |
| F001298 | Metagenome / Metatranscriptome | 727 | Y |
| F001780 | Metagenome / Metatranscriptome | 635 | Y |
| F010765 | Metagenome / Metatranscriptome | 299 | Y |
| F021297 | Metagenome / Metatranscriptome | 219 | Y |
| F028807 | Metagenome / Metatranscriptome | 190 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0334977_0000642_10009_10389 | F001298 | N/A | MSLYGTEFLNDAKEMVADFGVAGSANSGAITFSCLISDPAVSTVLEAGGYMERTQYSVRLPAVTASWSQPDGSMGASAALLSAGVPIASLGQGKKIVAGGKTVRITSQTYKPGSAWITLVVIDDNQ |
| Ga0334977_0000642_11368_11802 | F001055 | N/A | MGTKSIRHIVEATLATYLSTQTGLTAVTFLTGDSAATQTLPKAVVLCDSARAPGDLPEGLGNYSCSVRITLFSNADDTTLADHRARCAALSGNMRDLTSIKAAFVTSTDATCYDVIIGSEDEGIDERSWATAFSFDVLVVLPAA |
| Ga0334977_0000642_16553_16873 | F021297 | N/A | MSCPNTVTISRGNSFACVFSWTPGASGPANLLTTTLSSTFEDKQFNQYQMTVTKAGDGLSFTVAYPGSTADWAIGLGRWDIKFVFPGSSVTRSEIFRVNVIDSVTV |
| Ga0334977_0000642_19048_19248 | F028807 | AGG | MSITTYRITMTGATLSDPYAFLQAVFPQRNGEPASSDGASVTVTFDTPQTPVDLGPLVKVETVVTA |
| Ga0334977_0000642_20399_20728 | F010765 | N/A | VSAALPQPPSPDEIPVEARDIGMGILIGSVSWLVRYFCSSEKQSLGYILRRTATAGLTSLLVGLGTKGYFSSEALAFAAAGCAGYAAPELSDALLARIKAMKGKIPPKG |
| Ga0334977_0000642_2773_3300 | F001780 | N/A | VTKASINDLSAPGKEAKSFDAWFFSQPKKLQEKMRENGVLPYREMSQSRHVFQVDANHPAWSTRDGDNLRKETEAFISRDHVGVMLKGFIDALAATNNFTWRRHVETVRWALSLPGCLDSRTIGRMYGRSHFWLRSRAKEIQRAVNSDACGMFPHCNARRDKHKQARPRHTPEAR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |