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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300020506 Open in IMG/M |
| Scaffold ID | Ga0208091_1000817 Open in IMG/M |
| Source Dataset Name | Freshwater microbial communities from Lake Mendota, WI - 26OCT2012 deep hole epilimnion (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) | 5308 |
| Total Scaffold Genes | 12 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 2 (16.67%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (50.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Rhizobiaceae → Sinorhizobium/Ensifer group → Sinorhizobium → Sinorhizobium meliloti | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Lake Mendota, Madison, Wisconsin, USA | |||||||
| Coordinates | Lat. (o) | 43.098333 | Long. (o) | -89.405278 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F003786 | Metagenome / Metatranscriptome | 468 | N |
| F019647 | Metagenome / Metatranscriptome | 228 | N |
| F038230 | Metagenome | 166 | N |
| F041020 | Metagenome / Metatranscriptome | 160 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208091_100081710 | F003786 | N/A | MSNLTQYQPRNSDEQAIISARSNRIANMEQKDAYKQTLNVISSVFPMYGIDGDLAFYANIAKEIVKTFGQIAANEIEIAFRLFSAESLELDDDVKFYGKANMHTIGKILNGYMTYRRKIIASHDNEVAALRHQVQMEERGKAEREKLYAEFPTMIKEFTGKTWEDVPLYWYDMCLKFDMITYEEGEKRALWDEAQAIALKEPPESLDLLTIRSHAKKIEQGNMKRAVVIAQKLAVWRKVIKK |
| Ga0208091_100081712 | F019647 | AGGA | MKIVKGVVKYGAGAPREGQYGPSINILVTLEDQSQVRVYGKPGDVIERYKSGQNIQLIDDKGKYKVVEDEPQTITAQAEQSEKPDLAAMVFEMSAIYSQAYIDIYNKISEAGIPHENATAATSTIFIQVFQKLR |
| Ga0208091_10008178 | F041020 | N/A | MKQTPKEKAKELFDHYHILITGIGGELGNEILVTILAEQCALFFAMQMQQEKWDEKKYKAHSYWEEVEVEIVNIGMYAM |
| Ga0208091_10008179 | F038230 | GGA | MQCKQDRNAYMREYMKRYRATMNEYTYKKIRERENKRLRAKYHAMTDEERQKYIEYQRTYHKLKQFTNE |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |