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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 2199352004 Open in IMG/M |
| Scaffold ID | 2199816734 Open in IMG/M |
| Source Dataset Name | Freshwater microbial communities from Lake Mendota, WI - Practice 15JUN2010 epilimnion |
| 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) | 6242 |
| Total Scaffold Genes | 23 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 22 (95.65%) |
| Novel Protein Genes | 11 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 11 (100.00%) |
| Associated Families | 11 |
| Taxonomy | |
|---|---|
| Not Available | (Source: ) |
| 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, WI | |||||||
| 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? |
|---|---|---|---|
| F000447 | Metagenome / Metatranscriptome | 1128 | Y |
| F001562 | Metagenome / Metatranscriptome | 670 | Y |
| F002245 | Metagenome / Metatranscriptome | 578 | Y |
| F002598 | Metagenome / Metatranscriptome | 544 | Y |
| F004051 | Metagenome / Metatranscriptome | 455 | Y |
| F004840 | Metagenome / Metatranscriptome | 421 | Y |
| F007263 | Metagenome / Metatranscriptome | 354 | Y |
| F015730 | Metagenome / Metatranscriptome | 252 | Y |
| F020168 | Metagenome / Metatranscriptome | 225 | Y |
| F029434 | Metagenome / Metatranscriptome | 188 | Y |
| F050376 | Metagenome / Metatranscriptome | 145 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| 2199990784 | F004051 | GAGG | MTINDKLYQVGDLFTTLKSKKTGVIKEIHPQASGSVRVLLEMPSKETRWTSVSAKTLLGA |
| 2199990786 | F002245 | AGG | MSNLMKVPHTVVFEAIIDLDKIPASLLPALIALDKSSIEQMCKEATLHALGMSNVLPLANDNNTWAEVTIKGDN |
| 2199990787 | F020168 | GAG | MYDVIGSVIGIILIAFLCSPLVLAVYMWRGAKIDSDNDGKDDVPYRWEKQ |
| 2199990791 | F004840 | AGGA | MYKITCAYDSNAPHWSAEYESEFGAWENFFKFTDWGFADEYSTVNIYTPTGKCYTKVFYRTGMVSVK |
| 2199990793 | F007263 | AGG | MITKDYIDQTEFYLVKDEQHFCCDESQFRYVCKAHGEQMDCYFCGFDYDQDCEEQH |
| 2199990794 | F002598 | AGAAGG | MATKLYTIESLLVGQNYRSRNRHFAGEIVSAKPRPEIWYGDKTEAFLIEIRTGGLRNKFATVAVKVGE |
| 2199990795 | F001562 | GAGG | MKSQFEKDLEIKESFIDFLNDLYPTVKIGYSTFTPAEILECCDPVAFAIGLVEHEDYLAELEEE |
| 2199990796 | F029434 | AGG | MKRYTFGVWLDIDAEDEEMAISLFDSVVKNAFVSDSYCFEWKEVADEIAV |
| 2199990797 | F000447 | AGGAGG | MGYVEIFRIDNEGAGWVDLSEATPDELLDLEIGLFQEGAL |
| 2199990798 | F050376 | AGG | MTLDEYKAYVEATRKESLLKAIATMSEANDKMSSLFNTKEAD |
| 2199990803 | F015730 | AGGAG | MLTQKTLDAIVYEYQHGGVKSNHPELTTYERKALLKHLFSLPTYCACCVR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |