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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300020529 Open in IMG/M |
| Scaffold ID | Ga0208233_1000039 Open in IMG/M |
| Source Dataset Name | Freshwater microbial communities from Lake Mendota, WI - 07SEP2012 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) | 23657 |
| Total Scaffold Genes | 59 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 42 (71.19%) |
| Novel Protein Genes | 10 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 7 (70.00%) |
| Associated Families | 10 |
| 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) | 43.098333 | Long. (o) | -89.405278 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000441 | Metagenome / Metatranscriptome | 1136 | Y |
| F001125 | Metagenome / Metatranscriptome | 769 | Y |
| F009530 | Metagenome / Metatranscriptome | 316 | Y |
| F011299 | Metagenome / Metatranscriptome | 292 | Y |
| F037095 | Metagenome / Metatranscriptome | 168 | Y |
| F038479 | Metagenome / Metatranscriptome | 166 | Y |
| F043932 | Metagenome / Metatranscriptome | 155 | Y |
| F043940 | Metagenome / Metatranscriptome | 155 | Y |
| F047059 | Metagenome / Metatranscriptome | 150 | Y |
| F068831 | Metagenome / Metatranscriptome | 124 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208233_100003912 | F001125 | GGCGG | MGDRANFGFKDQKGDTVFLYGHWAGYDMLAKLANAVQAAETRWQDPSYATRIAISHLIGEDWNQTLSWGIYVNQLGDNEHKVPVINWATQTFTLYEEDLETVVFSSSLASFVDKYSRLVM |
| Ga0208233_100003920 | F043940 | AGG | MKNRFRVEIYDANKANDLTIYSEQGVDKEYLTELAFSNRGNFLGDVRAYVYDTLKKTKTTALYLPSEVINFNRKNQLTREELGL |
| Ga0208233_100003926 | F011299 | N/A | MTRKDYVAVAEILKYASDKAHPALFSKMVNDFAEMFAKDNDRFDVNRFHEASGYHVPKLTTR |
| Ga0208233_100003936 | F009530 | N/A | MGELIMTITYSIWQGSKLISIDNVAHEAKAIDNVIQSLNDSELGKVKKFTANVMDIKVTA |
| Ga0208233_100003939 | F038479 | AGGA | MTSLTLEQKIAKAAHLIAEGKVVSFRGASFDTYMKVERLANRIKQEQEFPQCPCGECE |
| Ga0208233_10000394 | F000441 | AGGAGG | MSDEYLNDQLSKAQALLWGGSETENIEAHNIISKLIKDKIEQVGL |
| Ga0208233_100003953 | F037095 | AGGAGG | MAKAKEDLNGDGKVTMQEKILAALASYGRHFLGAAIALYMTGNTSPRDLMLGGFAATAPVILKALNPNEPSFGFTKN |
| Ga0208233_100003957 | F043932 | AGGA | MAKKFKSLLNLLTLPEDPLVGLTGDVYFNVTSKNIKIYNGAIWVDLTPASKDPAPFYMHTHAYDGSVHTVNLNETVYFDNLNQNSGVEETIPVIIGLDGGTPTSSYANANYTQLTLLDGGQIGD |
| Ga0208233_100003958 | F068831 | N/A | MEAKLATNYPTSKDNLTNPAATESMEGHAALHGTVNDAIEAIENKLGVNGSTDVNSIDYKVSQLEANLATLDAENASELLGLDGNNDLTIDGIENKTAIDSFSKTVYKTAKYSLQIHKSAGNLTSTSNILLLNDGTDVYISESDMVSNTDQTLANVTFEENNGIISLCVTPVSGSVKVRYFRTALKA |
| Ga0208233_10000397 | F047059 | GGA | MKIHLISLNQDLEDARNNVPLNEDEYFESDAYYTGAIDTMEHILSVANDIMIDNERVY |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |