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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300020498 Open in IMG/M |
| Scaffold ID | Ga0208050_1000109 Open in IMG/M |
| Source Dataset Name | Freshwater microbial communities from Lake Mendota, WI - 13JUN2010 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) | 19457 |
| Total Scaffold Genes | 52 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 41 (78.85%) |
| Novel Protein Genes | 12 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 11 (91.67%) |
| Associated Families | 12 |
| 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, Wisconsin, USA | |||||||
| Coordinates | Lat. (o) | 43.099444 | Long. (o) | -89.404444 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000263 | Metagenome / Metatranscriptome | 1424 | Y |
| F000441 | Metagenome / Metatranscriptome | 1136 | Y |
| F000852 | Metagenome / Metatranscriptome | 860 | Y |
| F008814 | Metagenome / Metatranscriptome | 327 | Y |
| F011394 | Metagenome / Metatranscriptome | 291 | Y |
| F021988 | Metagenome / Metatranscriptome | 216 | Y |
| F023344 | Metagenome / Metatranscriptome | 210 | Y |
| F038241 | Metagenome / Metatranscriptome | 166 | Y |
| F040629 | Metagenome / Metatranscriptome | 161 | Y |
| F060917 | Metagenome / Metatranscriptome | 132 | Y |
| F063705 | Metagenome / Metatranscriptome | 129 | Y |
| F072349 | Metagenome / Metatranscriptome | 121 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208050_10001091 | F023344 | AGGCGG | MEAFTDTVGEHILGAIQVDIEQHLFEQWNSKNLDEGSDYAEYMFMQFAPDSLKQSYNEYYGYIEGDEFLL |
| Ga0208050_100010910 | F000852 | GGA | MTTKREYLKQQGITVGVRGRFSGAAKVALAEAEAKGVKFTAEAPVKKAK |
| Ga0208050_100010918 | F060917 | GGA | MINWLVNKLFWWSPLRDAIFDEVHMYDHIDSIMNDPDSMNTGSLSWMEGDMWYGWTYNSNARRYYFDDIGNKSLIGLWEDQWLREADEGVTK |
| Ga0208050_10001093 | F038241 | GGAGG | MLGYTKTDIDEMGNAMHDAKLFYILKSDIVRVDEDPIVDGLLKAQDFLQGLWAEGYFD |
| Ga0208050_100010931 | F021988 | GGA | MSMDGTGMAPPPNGAAAGAVTSREATRKNPRQGLKIDTNKHGIRREINTAQRPPKKIGRKKI |
| Ga0208050_100010940 | F008814 | GGA | MAEITVLDGIIKDLGQELYQKWYNGLAQEDITPEASEAMAKNAGETTFWVIQNFMIRFNEAAEALKDK |
| Ga0208050_100010945 | F072349 | GGAG | MEKVLCYSCNKTKASLSLKRSTLLPINLLLCETCILNKLEPRWVVILTGRQYGHDTVKDYISKKRYHGEDIKASELLV |
| Ga0208050_100010947 | F011394 | N/A | MANFINKDKDHFKYGINEWTGEANKPVFYTKEMAQKVRELKSPAHDLQMDIIKYPEFLAIRLYENNFSQYDGSMRMRVIDYIEMVKRILESYGVRVELEGKPGGRTR |
| Ga0208050_10001095 | F063705 | AGGAG | MTKSSYFLEYMKLHLISLNQDWEDSKNSVPLNEDEYDPSDDYYVGATEAVEHLLSVATDIMNSSNERYE |
| Ga0208050_100010951 | F040629 | AGG | VNTYIVKIEVLASVDAFSEADAKDYISDIFNVDDEIKSVKIIKIAKSS |
| Ga0208050_10001097 | F000263 | GAGG | MNAEDIGLPPHLQRMVNAGVSGLDIMHGELKNLMLIAEQDLASALEQEELSEEAMDSMVRTECEGRLDMLVELYNLTYQLSFAIGARDEA |
| Ga0208050_10001099 | F000441 | AGGAGG | MKMSDDYINDQLNKAQQLLWGGSETENIEAHNIISKLIKDRIEQVS |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |